Start: 2024-10-09 21:33:52 GMT [testing] Package: paleomix Version: 1.3.8-1 Installed-Size: 2006 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-coloredlogs, python3-configargparse, python3-pysam, python3-ruamel.yaml, python3-setproctitle, python3:any, adapterremoval, bedtools, bowtie2, bwa, bcftools, examl, mafft, mapdamage, phylip, picard-tools, r-base-core, radiant, raxml, samtools Description: pipelines and tools for the processing of ancient and modern HTS data Homepage: https://geogenetics.ku.dk/publications/paleomix Description-md5: 7cb3c4aa709e51b480a41a73961d7253 Section: science Priority: optional Filename: pool/main/p/paleomix/paleomix_1.3.8-1_amd64.deb Size: 983864 MD5sum: 5f5fdaf6a3957756e162048d7dfa0362 SHA256: 1962b954a2ab038bd6339542265e1f9720eba2aeaded3066749bda681a7424ba [sid] Package: paleomix Version: 1.3.8-2 Installed-Size: 2006 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-coloredlogs, python3-configargparse, python3-pysam, python3-ruamel.yaml, python3-setproctitle, python3:any, adapterremoval, bedtools, bowtie2, bwa, bcftools, examl, mafft, mapdamage, phylip, picard-tools, r-base-core, radiant, raxml, samtools Description: pipelines and tools for the processing of ancient and modern HTS data Homepage: https://geogenetics.ku.dk/publications/paleomix Description-md5: 7cb3c4aa709e51b480a41a73961d7253 Section: science Priority: optional Filename: pool/main/p/paleomix/paleomix_1.3.8-2_amd64.deb Size: 984108 MD5sum: 002d92f28755caf1c12004da66a7964a SHA256: 56fcce16061450d75d95b3db3d8169aee8f8e810f5ac2a725ea57c7dce44864e Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt paleomix=1.3.8-2 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt paleomix=1.3.8-2 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpzth9mqlr 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpzth9mqlr 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/proc'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/pts'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/pts'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/ptmx'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/ptmx'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/console'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/console'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/shm'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/shm'] 0m0.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.4s DEBUG: Created policy-rc.d and chmodded it. 0m0.4s DEBUG: Created resolv.conf. 0m0.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpzth9mqlr/tmp/scripts/ 0m0.4s INFO: Running scripts post_chroot_unpack 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'update'] 0m3.5s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [169 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9314 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6213 kB] Fetched 15.7 MB in 2s (8033 kB/s) Reading package lists... 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'update'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-yf', 'dist-upgrade'] 0m4.9s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libc-bin libc6 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 3433 kB of archives. After this operation, 406 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libc6 amd64 2.40-3 [2807 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libc-bin amd64 2.40-3 [627 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 3433 kB in 0s (61.0 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 ... 5141 files and directories currently installed.) Preparing to unpack .../libc6_2.40-3_amd64.deb ... Unpacking libc6:amd64 (2.40-3) over (2.40-2) ... Setting up libc6:amd64 (2.40-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5141 files and directories currently installed.) Preparing to unpack .../libc-bin_2.40-3_amd64.deb ... Unpacking libc-bin (2.40-3) over (2.40-2) ... Setting up libc-bin (2.40-3) ... 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-yf', 'dist-upgrade'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.3s DUMP: 937e2a3adb282bc7c34e5b38e274ee0d - 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.3s INFO: Running scripts post_setup 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_dummy_users'] 0m6.1s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_dummy_users'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_forbid_home'] 0m6.2s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_forbid_home'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.2s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_minimize'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_minimize'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_zz_backports'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_setup_zz_backports'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.2s DUMP: install ok installed apt apt 2.9.8 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1+b1 install ok installed bsdutils bsdutils 1:2.40.2-8 install ok installed coreutils coreutils 9.4-3.1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-3 install ok installed gpgv gpgv 2.2.43-8+b1 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:3.1.2-4 install ok installed libaudit1:amd64 libaudit1 1:3.1.2-4+b1 install ok installed libblkid1:amd64 libblkid1 2.40.2-8 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-3 install ok installed libc6:amd64 libc6 2.40-3 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.40.2-8 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-8 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-1 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-3 install ok installed libsystemd0:amd64 libsystemd0 256.6-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libudev1:amd64 libudev1 256.6-1 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-8 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed login login 1:4.16.0-2+really2.40.2-8 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-8 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-1 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.38.2-5 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.10-2 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-8 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.2s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m6.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 0m6.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 0m6.5s INFO: Running scripts is_testable 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/is_testable_uninstallable'] 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/is_testable_uninstallable'] 0m6.5s INFO: Running scripts pre_test 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_test_exceptions'] 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_test_exceptions'] 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_test_root_password'] 0m6.6s DUMP: New password: Retype new password: passwd: password updated successfully 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_test_root_password'] 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'show', '--no-all-versions', 'paleomix'] 0m6.8s DUMP: Package: paleomix Version: 1.3.8-1 Installed-Size: 2006 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-coloredlogs, python3-configargparse, python3-pysam, python3-ruamel.yaml, python3-setproctitle, python3:any, adapterremoval, bedtools, bowtie2, bwa, bcftools, examl, mafft, mapdamage, phylip, picard-tools, r-base-core, radiant, raxml, samtools Description-en: pipelines and tools for the processing of ancient and modern HTS data The PALEOMIX pipelines are a set of pipelines and tools designed to aid the rapid processing of High-Throughput Sequencing (HTS) data: The BAM pipeline processes de-multiplexed reads from one or more samples, through sequence processing and alignment, to generate BAM alignment files useful in downstream analyses; the Phylogenetic pipeline carries out genotyping and phylogenetic inference on BAM alignment files, either produced using the BAM pipeline or generated elsewhere; and the Zonkey pipeline carries out a suite of analyses on low coverage equine alignments, in order to detect the presence of F1-hybrids in archaeological assemblages. In addition, PALEOMIX aids in metagenomic analysis of the extracts. . The pipelines have been designed with ancient DNA (aDNA) in mind, and includes several features especially useful for the analyses of ancient samples, but can all be for the processing of modern samples, in order to ensure consistent data processing. Description-md5: 7cb3c4aa709e51b480a41a73961d7253 Homepage: https://geogenetics.ku.dk/publications/paleomix Section: science Priority: optional Filename: pool/main/p/paleomix/paleomix_1.3.8-1_amd64.deb Size: 983864 MD5sum: 5f5fdaf6a3957756e162048d7dfa0362 SHA256: 1962b954a2ab038bd6339542265e1f9720eba2aeaded3066749bda681a7424ba 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'show', '--no-all-versions', 'paleomix'] 0m6.8s INFO: apt-cache knows about the following packages: paleomix 0m6.8s INFO: Running scripts pre_install 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_database-server'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_database-server'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_exceptions'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_exceptions'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_extras'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_extras'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy'] 0m6.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy', 'paleomix'] 0m6.9s DUMP: paleomix: Installed: (none) Candidate: 1.3.8-1 Version table: 1.3.8-1 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy', 'paleomix'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-y', 'install', 'paleomix'] 0m47.2s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: adapterremoval adduser adwaita-icon-theme at-spi2-common bcftools bedtools bowtie2 bwa ca-certificates ca-certificates-java dbus dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common dbus-user-session dconf-gsettings-backend dconf-service default-jre default-jre-headless examl fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme ibverbs-providers java-common libamd-comgr2 libamdhip64-5 libapache-pom-java libapparmor1 libasound2-data libasound2t64 libatk-bridge2.0-0t64 libatk1.0-0t64 libatomic1 libatspi2.0-0t64 libavahi-client3 libavahi-common-data libavahi-common3 libbarclay-java libblas3 libbrotli1 libcairo-gobject2 libcairo2 libcbor0.10 libcloudproviders0 libcolord2 libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcups2t64 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdbus-1-3 libdconf1 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-radeon1 libdrm2 libedit2 libelf1t64 libepoxy0 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libfabric1 libfido2-1 libfontconfig1 libfreemarker-java libfreetype6 libfribidi0 libgatk-native-bindings-java libgbm1 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgkl-java libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgoogle-gson-java libgraphite2-3 libgsl-dev libgsl28 libgslcblas0 libgssapi-krb5-2 libgtk-3-0t64 libgtk-3-common libharfbuzz0b libhsa-runtime64-1 libhsakmt1 libhts3t64 libhtscodecs2 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libice6 libicu72 libjbig0 libjoptsimple-java libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 liblightcouch-java libllvm17t64 libllvm19 liblog4j2-java libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmjson-java libmongodb-java libmunge2 libncbi-ngs3 libncbi-vdb3 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-gnutls8 libnl-3-200 libnl-route-3-200 libnsl2 libnspr4 libnss3 libnuma1 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenmpi3t64 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcsclite1 libperl5.38t64 libpicard-java libpixman-1-0 libpmix2t64 libpng16-16t64 libproc2-0 libpsl5t64 libpsm-infinipath1 libpsm2-2 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib librdmacm1t64 libreadline8t64 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv0 libslf4j-java libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libsystemd-shared libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libucx0 libvulkan1 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwayland-server0 libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml2 libxnvctrl0 libxrandr2 libxrender1 libxshmfence1 libxss1 libxt6t64 libxtst6 libxxf86vm1 libz3-4 littler mafft mapdamage media-types mesa-libgallium ncbi-vdb-data netbase ocl-icd-libopencl1 openjdk-21-jre openjdk-21-jre-headless openmpi-bin openmpi-common openssh-client openssl perl perl-modules-5.38 phylip picard-tools procps python3 python3-coloredlogs python3-configargparse python3-humanfriendly python3-minimal python3-monotonic python3-pysam python3-ruamel.yaml python3-ruamel.yaml.clib python3-setproctitle python3.12 python3.12-minimal r-base-core r-cran-cli r-cran-codetools r-cran-colorspace r-cran-fansi r-cran-farver r-cran-foreach r-cran-gam r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-inline r-cran-isoband r-cran-iterators r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppgsl r-cran-rlang r-cran-scales r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr radiant raxml readline-common samtools sensible-utils seqtk shared-mime-info systemd systemd-sysv ucf unzip x11-common xdg-utils xkb-data zip Suggested packages: liblocale-gettext-perl cron quota python3-numpy texlive-latex-recommended bowtie2-examples alsa-utils libasound2-plugins colord libasm-java libxz-java libavalon-framework-java libexcalibur-logkit-java liblog4j1.2-java cups-common jython libdom4j-java libjaxen-java libjdom1-java libxalan2-java gdbm-l10n low-memory-monitor libgoogle-gson-java-doc gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-doc krb5-user gvfs libhwloc-contrib-plugins libjoptsimple-java-doc liblcms2-utils libactivation-java libcommons-csv-java libconversant-disruptor-java libdisruptor-java libgeronimo-jms-1.1-spec-java libjackson2-dataformat-xml-java libjackson2-dataformat-yaml libjansi-java libjctools-java libjeromq-java libmail-java libwoodstox-java libngs-java-doc libcryptsetup12 libtss2-rc0t64 pciutils pcscd rhino lm-sensors libarchive13t64 libbpf1 libdw1t64 libip4tc2 libpwquality1 libqrencode4 tcl8.6 tk8.6 opencl-icd libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic gfortran | fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl phylip-doc python3-doc python3-tk python3-venv python3.12-venv python3.12-doc binutils binfmt-support elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-cran-covr r-cran-knitr r-cran-magick r-cran-rmarkdown r-cran-sf r-cran-getopt r-cran-bit64 r-cran-dbi r-cran-dplyr r-cran-formattable r-cran-nanotime r-cran-palmerpenguins r-cran-stringi r-cran-survival r-cran-units r-cran-vdiffr r-cran-testthat r-cran-bench r-cran-blob r-cran-brio r-cran-callr r-cran-crayon r-cran-evaluate r-cran-here r-cran-hms r-cran-htmltools r-cran-pkgbuild r-cran-pkgload r-cran-purrr r-cran-tidyr readline-doc cwltool systemd-container systemd-homed systemd-userdbd systemd-boot systemd-resolved systemd-repart libtss2-tcti-device0 polkitd Recommended packages: librsvg2-common python3-gffutils python3-matplotlib alsa-ucm-conf alsa-topology-conf at-spi2-core libgdk-pixbuf2.0-bin libgkl-jni libglib2.0-data xdg-user-dirs libgtk-3-bin krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules libkmod2 mesa-vulkan-drivers | vulkan-icd blast2 libwww-perl lynx ruby libatk-wrapper-java-jni fonts-dejavu-extra xauth psmisc linux-sysctl-defaults r-recommended r-base-dev r-doc-html r-cran-callr r-cran-covr r-cran-crayon r-cran-digest r-cran-htmltools r-cran-htmlwidgets r-cran-knitr r-cran-mockery r-cran-processx r-cran-ps r-cran-rmarkdown r-cran-rprojroot r-cran-rstudioapi r-cran-testthat r-cran-whoami r-cran-kernsmooth r-cran-kernlab r-cran-mvtnorm r-cran-vcd r-cran-shiny r-cran-shinyjs r-cran-dplyr r-cran-png r-cran-jpeg r-cran-viridis r-cran-unitizer r-cran-interp r-cran-hexbin r-cran-hmisc r-cran-mapproj r-cran-maps r-cran-multcomp r-cran-profvis r-cran-quantreg r-cran-ragg r-cran-rpart r-cran-sf r-cran-svglite r-cran-vdiffr r-cran-xml2 r-cran-dbi r-cran-rsqlite r-cran-waldo r-cran-lintr r-cran-tidyverse r-cran-lubridate r-cran-fs r-cran-usethis r-cran-bit64 r-cran-dichromat r-cran-hms r-cran-stringi r-cran-data.table r-cran-mockr r-cran-formattable r-cran-generics r-cran-pkgdown r-cran-zeallot systemd-timesyncd | time-daemon systemd-cryptsetup libnss-systemd libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: adapterremoval adduser adwaita-icon-theme at-spi2-common bcftools bedtools bowtie2 bwa ca-certificates ca-certificates-java dbus dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common dbus-user-session dconf-gsettings-backend dconf-service default-jre default-jre-headless examl fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme ibverbs-providers java-common libamd-comgr2 libamdhip64-5 libapache-pom-java libapparmor1 libasound2-data libasound2t64 libatk-bridge2.0-0t64 libatk1.0-0t64 libatomic1 libatspi2.0-0t64 libavahi-client3 libavahi-common-data libavahi-common3 libbarclay-java libblas3 libbrotli1 libcairo-gobject2 libcairo2 libcbor0.10 libcloudproviders0 libcolord2 libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcups2t64 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdbus-1-3 libdconf1 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-radeon1 libdrm2 libedit2 libelf1t64 libepoxy0 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libfabric1 libfido2-1 libfontconfig1 libfreemarker-java libfreetype6 libfribidi0 libgatk-native-bindings-java libgbm1 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgkl-java libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgoogle-gson-java libgraphite2-3 libgsl-dev libgsl28 libgslcblas0 libgssapi-krb5-2 libgtk-3-0t64 libgtk-3-common libharfbuzz0b libhsa-runtime64-1 libhsakmt1 libhts3t64 libhtscodecs2 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libice6 libicu72 libjbig0 libjoptsimple-java libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 liblightcouch-java libllvm17t64 libllvm19 liblog4j2-java libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmjson-java libmongodb-java libmunge2 libncbi-ngs3 libncbi-vdb3 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-gnutls8 libnl-3-200 libnl-route-3-200 libnsl2 libnspr4 libnss3 libnuma1 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenmpi3t64 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcsclite1 libperl5.38t64 libpicard-java libpixman-1-0 libpmix2t64 libpng16-16t64 libproc2-0 libpsl5t64 libpsm-infinipath1 libpsm2-2 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib librdmacm1t64 libreadline8t64 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv0 libslf4j-java libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libsystemd-shared libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libucx0 libvulkan1 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwayland-server0 libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml2 libxnvctrl0 libxrandr2 libxrender1 libxshmfence1 libxss1 libxt6t64 libxtst6 libxxf86vm1 libz3-4 littler mafft mapdamage media-types mesa-libgallium ncbi-vdb-data netbase ocl-icd-libopencl1 openjdk-21-jre openjdk-21-jre-headless openmpi-bin openmpi-common openssh-client openssl paleomix perl perl-modules-5.38 phylip picard-tools procps python3 python3-coloredlogs python3-configargparse python3-humanfriendly python3-minimal python3-monotonic python3-pysam python3-ruamel.yaml python3-ruamel.yaml.clib python3-setproctitle python3.12 python3.12-minimal r-base-core r-cran-cli r-cran-codetools r-cran-colorspace r-cran-fansi r-cran-farver r-cran-foreach r-cran-gam r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-inline r-cran-isoband r-cran-iterators r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppgsl r-cran-rlang r-cran-scales r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr radiant raxml readline-common samtools sensible-utils seqtk shared-mime-info systemd systemd-sysv ucf unzip x11-common xdg-utils xkb-data zip 0 upgraded, 334 newly installed, 0 to remove and 0 not upgraded. Need to get 318 MB of archives. After this operation, 1273 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libapparmor1 amd64 3.1.7-1+b1 [42.0 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libsystemd-shared amd64 256.6-1 [2061 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 systemd amd64 256.6-1 [3488 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 systemd-sysv amd64 256.6-1 [58.2 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libdbus-1-3 amd64 1.14.10-4+b1 [203 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 dbus-bin amd64 1.14.10-4+b1 [106 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 dbus-session-bus-common all 1.14.10-4 [79.0 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.3-1 [105 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 dbus-daemon amd64 1.14.10-4+b1 [185 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 adduser all 3.137 [140 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 dbus-system-bus-common all 1.14.10-4 [80.1 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 dbus amd64 1.14.10-4+b1 [98.6 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 perl-modules-5.38 all 5.38.2-5 [2905 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libperl5.38t64 amd64 5.38.2-5 [4275 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 perl amd64 5.38.2-5 [236 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.6-1 [814 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.6-1 [2168 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.12.6-1 [26.7 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libncursesw6 amd64 6.5-2 [135 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:27 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libsqlite3-0 amd64 3.46.0-1 [902 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.6-1 [1963 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.6-1 [669 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get:38 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-1 [1381 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libpam-systemd amd64 256.6-1 [278 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libcbor0.10 amd64 0.10.2-2 [28.3 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libfido2-1 amd64 1.15.0-1 [78.5 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 openssh-client amd64 1:9.9p1-1 [991 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 adapterremoval amd64 2.3.3-3 [201 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-3 [9288 B] Get:53 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.1-1 [1499 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 shared-mime-info amd64 2.4-5+b1 [759 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-1 [139 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 gtk-update-icon-cache amd64 4.16.3+ds-1 [49.7 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 hicolor-icon-theme all 0.18-1 [12.0 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 adwaita-icon-theme all 47.0-1 [463 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 at-spi2-common all 2.54.0-1 [170 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3 [187 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.63.0-1 [74.8 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.4.0-1 [63.1 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.10.1-1 [359 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.20+ds-1 [452 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 bcftools amd64 1.20-2 [760 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 bedtools amd64 2.31.1+dfsg-2 [678 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 bowtie2 amd64 2.5.4-1 [1510 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 bwa amd64 0.7.18-1 [212 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 dbus-user-session amd64 1.14.10-4+b1 [79.1 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 libdconf1 amd64 0.40.0-4+b2 [41.9 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 dconf-service amd64 0.40.0-4+b2 [32.4 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 dconf-gsettings-backend amd64 0.40.0-4+b2 [28.7 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 java-common all 0.76 [6776 B] Get:94 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.14-2+b1 [154 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libnspr4 amd64 2:4.35-1.1+b1 [109 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libnss3 amd64 2:3.105-2 [1393 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libpcsclite1 amd64 2.3.0-1 [55.4 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre-headless amd64 21.0.5~8ea-1 [41.8 MB] Get:99 http://deb.debian.org/debian trixie/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get:100 http://deb.debian.org/debian trixie/main amd64 libatk1.0-0t64 amd64 2.54.0-1 [51.2 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 libatspi2.0-0t64 amd64 2.54.0-1 [76.4 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 libatk-bridge2.0-0t64 amd64 2.54.0-1 [67.6 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get:114 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 libcairo-gobject2 amd64 1.18.2-2 [130 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 libcloudproviders0 amd64 0.3.6-1 [28.9 kB] Get:122 http://deb.debian.org/debian trixie/main amd64 libcolord2 amd64 1.4.7-1+b1 [139 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 libavahi-common-data amd64 0.8-13+b2 [112 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 libavahi-common3 amd64 0.8-13+b2 [43.3 kB] Get:125 http://deb.debian.org/debian trixie/main amd64 libavahi-client3 amd64 0.8-13+b2 [47.0 kB] Get:126 http://deb.debian.org/debian trixie/main amd64 libcups2t64 amd64 2.4.10-2 [251 kB] Get:127 http://deb.debian.org/debian trixie/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 9.0.0-1 [474 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1 [463 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get:134 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.54.0+ds-2 [223 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-2 [54.4 kB] Get:137 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-2 [35.2 kB] Get:138 http://deb.debian.org/debian trixie/main amd64 libwayland-client0 amd64 1.23.0-1 [26.4 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 libwayland-cursor0 amd64 1.23.0-1 [11.3 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 libwayland-egl1 amd64 1.23.0-1 [5392 B] Get:141 http://deb.debian.org/debian trixie/main amd64 libxcomposite1 amd64 1:0.4.5-1+b1 [14.9 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 libxfixes3 amd64 1:6.0.0-2+b1 [20.3 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 libxcursor1 amd64 1:1.2.2-1 [37.1 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 libxdamage1 amd64 1:1.1.6-1+b1 [15.5 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 libxinerama1 amd64 2:1.1.4-3+b1 [16.0 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 xkb-data all 2.42-1 [790 kB] Get:147 http://deb.debian.org/debian trixie/main amd64 libxkbcommon0 amd64 1.6.0-1+b1 [109 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 libxrandr2 amd64 2:1.5.4-1 [36.1 kB] Get:149 http://deb.debian.org/debian trixie/main amd64 libgtk-3-common all 3.24.43-4 [4657 kB] Get:150 http://deb.debian.org/debian trixie/main amd64 libgtk-3-0t64 amd64 3.24.43-4 [2754 kB] Get:151 http://deb.debian.org/debian trixie/main amd64 libglvnd0 amd64 1.7.0-1+b1 [56.3 kB] Get:152 http://deb.debian.org/debian trixie/main amd64 libdrm-common all 2.4.123-1 [8084 B] Get:153 http://deb.debian.org/debian trixie/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 libglapi-mesa amd64 24.2.4-1 [37.9 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 libx11-xcb1 amd64 2:1.8.7-1+b1 [232 kB] Get:156 http://deb.debian.org/debian trixie/main amd64 libxcb-dri2-0 amd64 1.17.0-2 [106 kB] Get:157 http://deb.debian.org/debian trixie/main amd64 libxcb-dri3-0 amd64 1.17.0-2 [107 kB] Get:158 http://deb.debian.org/debian trixie/main amd64 libxcb-glx0 amd64 1.17.0-2 [122 kB] Get:159 http://deb.debian.org/debian trixie/main amd64 libxcb-present0 amd64 1.17.0-2 [105 kB] Get:160 http://deb.debian.org/debian trixie/main amd64 libxcb-randr0 amd64 1.17.0-2 [116 kB] Get:161 http://deb.debian.org/debian trixie/main amd64 libxcb-sync1 amd64 1.17.0-2 [108 kB] Get:162 http://deb.debian.org/debian trixie/main amd64 libxcb-xfixes0 amd64 1.17.0-2 [109 kB] Get:163 http://deb.debian.org/debian trixie/main amd64 libxshmfence1 amd64 1.3-1+b1 [8852 B] Get:164 http://deb.debian.org/debian trixie/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:165 http://deb.debian.org/debian trixie/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB] Get:166 http://deb.debian.org/debian trixie/main amd64 libpciaccess0 amd64 0.17-3+b1 [51.9 kB] Get:167 http://deb.debian.org/debian trixie/main amd64 libdrm-intel1 amd64 2.4.123-1 [63.7 kB] Get:168 http://deb.debian.org/debian trixie/main amd64 libdrm-radeon1 amd64 2.4.123-1 [22.3 kB] Get:169 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get:170 http://deb.debian.org/debian trixie/main amd64 libz3-4 amd64 4.8.12-3.1+b2 [7346 kB] Get:171 http://deb.debian.org/debian trixie/main amd64 libllvm19 amd64 1:19.1.1-1 [26.0 MB] Get:172 http://deb.debian.org/debian trixie/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get:173 http://deb.debian.org/debian trixie/main amd64 libsensors5 amd64 1:3.6.0-10 [34.7 kB] Get:174 http://deb.debian.org/debian trixie/main amd64 mesa-libgallium amd64 24.2.4-1 [9182 kB] Get:175 http://deb.debian.org/debian trixie/main amd64 libvulkan1 amd64 1.3.290.0-1 [126 kB] Get:176 http://deb.debian.org/debian trixie/main amd64 libwayland-server0 amd64 1.23.0-1 [34.0 kB] Get:177 http://deb.debian.org/debian trixie/main amd64 libgbm1 amd64 24.2.4-1 [42.7 kB] Get:178 http://deb.debian.org/debian trixie/main amd64 libgl1-mesa-dri amd64 24.2.4-1 [43.8 kB] Get:179 http://deb.debian.org/debian trixie/main amd64 libglx-mesa0 amd64 24.2.4-1 [154 kB] Get:180 http://deb.debian.org/debian trixie/main amd64 libglx0 amd64 1.7.0-1+b1 [35.0 kB] Get:181 http://deb.debian.org/debian trixie/main amd64 libgl1 amd64 1.7.0-1+b1 [89.8 kB] Get:182 http://deb.debian.org/debian trixie/main amd64 libasound2-data all 1.2.12-1 [21.0 kB] Get:183 http://deb.debian.org/debian trixie/main amd64 libasound2t64 amd64 1.2.12-1 [369 kB] Get:184 http://deb.debian.org/debian trixie/main amd64 libgif7 amd64 5.2.2-1 [43.9 kB] Get:185 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:186 http://deb.debian.org/debian trixie/main amd64 libxtst6 amd64 2:1.2.3-1.1+b1 [25.9 kB] Get:187 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre amd64 21.0.5~8ea-1 [205 kB] Get:188 http://deb.debian.org/debian trixie/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get:189 http://deb.debian.org/debian trixie/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10 [131 kB] Get:190 http://deb.debian.org/debian trixie/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10 [53.9 kB] Get:191 http://deb.debian.org/debian trixie/main amd64 libnl-3-200 amd64 3.7.0-0.3 [59.0 kB] Get:192 http://deb.debian.org/debian trixie/main amd64 libnl-route-3-200 amd64 3.7.0-0.3 [181 kB] Get:193 http://deb.debian.org/debian trixie/main amd64 libibverbs1 amd64 52.0-2 [61.6 kB] Get:194 http://deb.debian.org/debian trixie/main amd64 ibverbs-providers amd64 52.0-2 [343 kB] Get:195 http://deb.debian.org/debian trixie/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.3 [170 kB] Get:196 http://deb.debian.org/debian trixie/main amd64 libnuma1 amd64 2.0.18-1 [21.9 kB] Get:197 http://deb.debian.org/debian trixie/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get:198 http://deb.debian.org/debian trixie/main amd64 librdmacm1t64 amd64 52.0-2 [70.2 kB] Get:199 http://deb.debian.org/debian trixie/main amd64 libfabric1 amd64 1.17.0-3+b1 [628 kB] Get:200 http://deb.debian.org/debian trixie/main amd64 libhwloc15 amd64 2.11.2-1 [164 kB] Get:201 http://deb.debian.org/debian trixie/main amd64 libmunge2 amd64 0.5.15-4 [19.8 kB] Get:202 http://deb.debian.org/debian trixie/main amd64 libxnvctrl0 amd64 535.171.04-1 [13.8 kB] Get:203 http://deb.debian.org/debian trixie/main amd64 ocl-icd-libopencl1 amd64 2.3.2-1+b1 [40.3 kB] Get:204 http://deb.debian.org/debian trixie/main amd64 libhwloc-plugins amd64 2.11.2-1 [18.1 kB] Get:205 http://deb.debian.org/debian trixie/main amd64 libpmix2t64 amd64 5.0.3-2 [658 kB] Get:206 http://deb.debian.org/debian trixie/main amd64 libllvm17t64 amd64 1:17.0.6-18 [23.6 MB] Get:207 http://deb.debian.org/debian trixie/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b1 [13.0 MB] Get:208 http://deb.debian.org/debian trixie/main amd64 libhsakmt1 amd64 5.7.0-1 [60.7 kB] Get:209 http://deb.debian.org/debian trixie/main amd64 libhsa-runtime64-1 amd64 5.7.1-3 [510 kB] Get:210 http://deb.debian.org/debian trixie/main amd64 libamdhip64-5 amd64 5.7.1-5 [8877 kB] Get:211 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-3 [137 kB] Get:212 http://deb.debian.org/debian trixie/main amd64 libibumad3 amd64 52.0-2 [27.7 kB] Get:213 http://deb.debian.org/debian trixie/main amd64 libibmad5 amd64 52.0-2 [43.3 kB] Get:214 http://deb.debian.org/debian trixie/main amd64 libucx0 amd64 1.17.0+ds-3 [1130 kB] Get:215 http://deb.debian.org/debian trixie/main amd64 libopenmpi3t64 amd64 4.1.6-13.3 [2426 kB] Get:216 http://deb.debian.org/debian trixie/main amd64 openmpi-common all 4.1.6-13.3 [169 kB] Get:217 http://deb.debian.org/debian trixie/main amd64 openmpi-bin amd64 4.1.6-13.3 [226 kB] Get:218 http://deb.debian.org/debian trixie/main amd64 examl amd64 3.0.22-5+b1 [961 kB] Get:219 http://deb.debian.org/debian trixie/main amd64 libapache-pom-java all 29-2 [5276 B] Get:220 http://deb.debian.org/debian trixie/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:221 http://deb.debian.org/debian trixie/main amd64 libcommons-lang3-java all 3.14.0-1 [621 kB] Get:222 http://deb.debian.org/debian trixie/main amd64 libfreemarker-java all 2.3.32-2 [1546 kB] Get:223 http://deb.debian.org/debian trixie/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get:224 http://deb.debian.org/debian trixie/main amd64 libjoptsimple-java all 5.0.4-4 [73.1 kB] Get:225 http://deb.debian.org/debian trixie/main amd64 libcommons-codec-java all 1.16.0-1 [297 kB] Get:226 http://deb.debian.org/debian trixie/main amd64 libcommons-logging-java all 1.3.0-1 [68.6 kB] Get:227 http://deb.debian.org/debian trixie/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get:228 http://deb.debian.org/debian trixie/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get:229 http://deb.debian.org/debian trixie/main amd64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get:230 http://deb.debian.org/debian trixie/main amd64 libmongodb-java all 3.6.3-2 [1901 kB] Get:231 http://deb.debian.org/debian trixie/main amd64 libslf4j-java all 1.7.32-1 [144 kB] Get:232 http://deb.debian.org/debian trixie/main amd64 liblog4j2-java all 2.19.0-2 [2310 kB] Get:233 http://deb.debian.org/debian trixie/main amd64 libbarclay-java all 5.0.0+dfsg-1 [108 kB] Get:234 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:235 http://deb.debian.org/debian trixie/main amd64 libcommons-compress-java all 1.25.0-1 [635 kB] Get:236 http://deb.debian.org/debian trixie/main amd64 libcommons-io-java all 2.16.1-1 [480 kB] Get:237 http://deb.debian.org/debian trixie/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:238 http://deb.debian.org/debian trixie/main amd64 libcommons-math3-java all 3.6.1-3 [2018 kB] Get:239 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.10.1-1 [352 kB] Get:240 http://deb.debian.org/debian trixie/main amd64 libgatk-native-bindings-java all 1.0.0+dfsg-2 [8024 B] Get:241 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-3 [837 kB] Get:242 http://deb.debian.org/debian trixie/main amd64 libmjson-java all 1.4.0-3 [60.4 kB] Get:243 http://deb.debian.org/debian trixie/main amd64 libmbedcrypto7t64 amd64 2.28.8-1 [284 kB] Get:244 http://deb.debian.org/debian trixie/main amd64 libmbedx509-1t64 amd64 2.28.8-1 [131 kB] Get:245 http://deb.debian.org/debian trixie/main amd64 libmbedtls14t64 amd64 2.28.8-1 [167 kB] Get:246 http://deb.debian.org/debian trixie/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get:247 http://deb.debian.org/debian trixie/main amd64 libncbi-vdb3 amd64 3.0.2+dfsg-2+b1 [1049 kB] Get:248 http://deb.debian.org/debian trixie/main amd64 libncbi-ngs3 amd64 3.0.3+dfsg-9 [155 kB] Get:249 http://deb.debian.org/debian trixie/main amd64 libngs-jni amd64 3.0.3+dfsg-9 [23.8 kB] Get:250 http://deb.debian.org/debian trixie/main amd64 libngs-java amd64 3.0.3+dfsg-9 [110 kB] Get:251 http://deb.debian.org/debian trixie/main amd64 librhino-java all 1.7.14-2.1 [1357 kB] Get:252 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.1-1 [29.1 kB] Get:253 http://deb.debian.org/debian trixie/main amd64 libsnappy-jni amd64 1.1.10.5-2 [6396 B] Get:254 http://deb.debian.org/debian trixie/main amd64 libsnappy-java all 1.1.10.5-2 [87.5 kB] Get:255 http://deb.debian.org/debian trixie/main amd64 libhtsjdk-java all 4.1.0+dfsg-2 [1833 kB] Get:256 http://deb.debian.org/debian trixie/main amd64 libgkl-java all 0.8.11+dfsg-2 [24.7 kB] Get:257 http://deb.debian.org/debian trixie/main amd64 libgslcblas0 amd64 2.8+dfsg-3 [116 kB] Get:258 http://deb.debian.org/debian trixie/main amd64 libgsl28 amd64 2.8+dfsg-3 [994 kB] Get:259 http://deb.debian.org/debian trixie/main amd64 libgsl-dev amd64 2.8+dfsg-3 [1223 kB] Get:260 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.0.10-1+b1 [56.7 kB] Get:261 http://deb.debian.org/debian trixie/main amd64 libopenblas0-pthread amd64 0.3.28+ds-2 [6897 kB] Get:262 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:263 http://deb.debian.org/debian trixie/main amd64 libncurses6 amd64 6.5-2 [104 kB] Get:264 http://deb.debian.org/debian trixie/main amd64 libopenblas0 amd64 0.3.28+ds-2 [40.9 kB] Get:265 http://deb.debian.org/debian trixie/main amd64 libopenblas-pthread-dev amd64 0.3.28+ds-2 [4844 kB] Get:266 http://deb.debian.org/debian trixie/main amd64 libopenblas-dev amd64 0.3.28+ds-2 [54.3 kB] Get:267 http://deb.debian.org/debian trixie/main amd64 libpaper1 amd64 1.1.29+b1 [12.9 kB] Get:268 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 1.1.29+b1 [9176 B] Get:269 http://deb.debian.org/debian trixie/main amd64 libpicard-java all 3.1.1+dfsg-1 [1743 kB] Get:270 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.3-1+b1 [33.6 kB] Get:271 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1042 kB] Get:272 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get:273 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b1 [17.0 kB] Get:274 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.15-1 [791 kB] Get:275 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2 [187 kB] Get:276 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB] Get:277 http://deb.debian.org/debian trixie/main amd64 unzip amd64 6.0-28 [166 kB] Get:278 http://deb.debian.org/debian trixie/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:279 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.1-3 [28.3 MB] Get:280 http://deb.debian.org/debian trixie/main amd64 r-cran-littler amd64 0.3.20-1 [102 kB] Get:281 http://deb.debian.org/debian trixie/main amd64 littler all 0.3.20-1 [16.0 kB] Get:282 http://deb.debian.org/debian trixie/main amd64 mafft amd64 7.505-1 [1078 kB] Get:283 http://deb.debian.org/debian trixie/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:284 http://deb.debian.org/debian trixie/main amd64 r-cran-iterators all 1.0.14-1 [337 kB] Get:285 http://deb.debian.org/debian trixie/main amd64 r-cran-foreach all 1.5.2-1 [122 kB] Get:286 http://deb.debian.org/debian trixie/main amd64 r-cran-gam amd64 1.22-5-1 [395 kB] Get:287 http://deb.debian.org/debian trixie/main amd64 r-cran-cli amd64 3.6.3-1 [1342 kB] Get:288 http://deb.debian.org/debian trixie/main amd64 r-cran-glue amd64 1.7.0-1 [157 kB] Get:289 http://deb.debian.org/debian trixie/main amd64 r-cran-rlang amd64 1.1.4-1 [1712 kB] Get:290 http://deb.debian.org/debian trixie/main amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] Get:291 http://deb.debian.org/debian trixie/main amd64 r-cran-gtable all 0.3.5+dfsg-1 [222 kB] Get:292 http://deb.debian.org/debian trixie/main amd64 r-cran-isoband amd64 0.2.7-1 [1614 kB] Get:293 http://deb.debian.org/debian trixie/main amd64 r-cran-mass amd64 7.3-61-1 [1112 kB] Get:294 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:295 http://deb.debian.org/debian trixie/main amd64 r-cran-nlme amd64 3.1.166-1 [2330 kB] Get:296 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-0-3 [4127 kB] Get:297 http://deb.debian.org/debian trixie/main amd64 r-cran-mgcv amd64 1.9-1-1 [3233 kB] Get:298 http://deb.debian.org/debian trixie/main amd64 r-cran-farver amd64 2.1.2-1 [1411 kB] Get:299 http://deb.debian.org/debian trixie/main amd64 r-cran-labeling all 0.4.3-1 [62.4 kB] Get:300 http://deb.debian.org/debian trixie/main amd64 r-cran-colorspace amd64 2.1-1+dfsg-1 [1716 kB] Get:301 http://deb.debian.org/debian trixie/main amd64 r-cran-munsell all 0.5.1-1 [237 kB] Get:302 http://deb.debian.org/debian trixie/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get:303 http://deb.debian.org/debian trixie/main amd64 r-cran-rcolorbrewer all 1.1-3-1 [54.7 kB] Get:304 http://deb.debian.org/debian trixie/main amd64 r-cran-viridislite all 0.4.2-2 [1299 kB] Get:305 http://deb.debian.org/debian trixie/main amd64 r-cran-scales all 1.3.0-1 [677 kB] Get:306 http://deb.debian.org/debian trixie/main amd64 r-cran-fansi amd64 1.0.5-1 [621 kB] Get:307 http://deb.debian.org/debian trixie/main amd64 r-cran-magrittr amd64 2.0.3-1 [201 kB] Get:308 http://deb.debian.org/debian trixie/main amd64 r-cran-utf8 amd64 1.2.4-1 [133 kB] Get:309 http://deb.debian.org/debian trixie/main amd64 r-cran-vctrs amd64 0.6.5-1 [1375 kB] Get:310 http://deb.debian.org/debian trixie/main amd64 r-cran-pillar all 1.9.0+dfsg-1 [463 kB] Get:311 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgconfig all 2.0.3-2 [19.6 kB] Get:312 http://deb.debian.org/debian trixie/main amd64 r-cran-tibble amd64 3.2.1+dfsg-2 [420 kB] Get:313 http://deb.debian.org/debian trixie/main amd64 r-cran-withr all 3.0.1+dfsg-1 [226 kB] Get:314 http://deb.debian.org/debian trixie/main amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3933 kB] Get:315 http://deb.debian.org/debian trixie/main amd64 r-cran-inline all 0.3.19-2 [129 kB] Get:316 http://deb.debian.org/debian trixie/main amd64 seqtk amd64 1.4-2 [34.6 kB] Get:317 http://deb.debian.org/debian trixie/main amd64 python3-pysam amd64 0.22.1+ds-2+b1 [3474 kB] Get:318 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgkitten all 0.2.4-1 [29.1 kB] Get:319 http://deb.debian.org/debian trixie/main amd64 r-cran-rcpp amd64 1.0.13-1 [2082 kB] Get:320 http://deb.debian.org/debian trixie/main amd64 r-cran-rcppgsl amd64 0.3.13-1+b1 [203 kB] Get:321 http://deb.debian.org/debian trixie/main amd64 mapdamage all 2.2.2+dfsg-1 [42.1 kB] Get:322 http://deb.debian.org/debian trixie/main amd64 python3-monotonic all 1.6-2 [5728 B] Get:323 http://deb.debian.org/debian trixie/main amd64 python3-humanfriendly all 10.0-5 [85.4 kB] Get:324 http://deb.debian.org/debian trixie/main amd64 python3-coloredlogs all 15.0.1-1 [47.4 kB] Get:325 http://deb.debian.org/debian trixie/main amd64 python3-configargparse all 1.7-1 [31.3 kB] Get:326 http://deb.debian.org/debian trixie/main amd64 python3-ruamel.yaml.clib amd64 0.2.8+ds-2 [130 kB] Get:327 http://deb.debian.org/debian trixie/main amd64 python3-ruamel.yaml all 0.18.6+ds-3 [145 kB] Get:328 http://deb.debian.org/debian trixie/main amd64 python3-setproctitle amd64 1.3.3-1+b3 [18.3 kB] Get:329 http://deb.debian.org/debian trixie/main amd64 phylip amd64 1:3.697+dfsg-4 [957 kB] Get:330 http://deb.debian.org/debian trixie/main amd64 picard-tools all 3.1.1+dfsg-1 [311 kB] Get:331 http://deb.debian.org/debian trixie/main amd64 radiant all 2.8.1+dfsg-2 [181 kB] Get:332 http://deb.debian.org/debian trixie/main amd64 raxml amd64 8.2.13+dfsg-1+b1 [1499 kB] Get:333 http://deb.debian.org/debian trixie/main amd64 samtools amd64 1.20-3 [653 kB] Get:334 http://deb.debian.org/debian trixie/main amd64 paleomix amd64 1.3.8-1 [984 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 318 MB in 2s (132 MB/s) Selecting previously unselected package libapparmor1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5145 files and directories currently installed.) Preparing to unpack .../libapparmor1_3.1.7-1+b1_amd64.deb ... Unpacking libapparmor1:amd64 (3.1.7-1+b1) ... Selecting previously unselected package libsystemd-shared:amd64. Preparing to unpack .../libsystemd-shared_256.6-1_amd64.deb ... Unpacking libsystemd-shared:amd64 (256.6-1) ... Selecting previously unselected package systemd. Preparing to unpack .../systemd_256.6-1_amd64.deb ... Unpacking systemd (256.6-1) ... Setting up libapparmor1:amd64 (3.1.7-1+b1) ... Setting up libsystemd-shared:amd64 (256.6-1) ... Setting up systemd (256.6-1) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' → '/usr/lib/systemd/system/getty@.service'. 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'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. [ESC][0;1;39m/usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring.[ESC][0m [ESC][0;1;31m"/home" already exists and is not a directory.[ESC][0m Selecting previously unselected package systemd-sysv. (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 ... 6108 files and directories currently installed.) Preparing to unpack .../0-systemd-sysv_256.6-1_amd64.deb ... Unpacking systemd-sysv (256.6-1) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../1-libdbus-1-3_1.14.10-4+b1_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-4+b1) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../2-dbus-bin_1.14.10-4+b1_amd64.deb ... Unpacking dbus-bin (1.14.10-4+b1) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../3-dbus-session-bus-common_1.14.10-4_all.deb ... Unpacking dbus-session-bus-common (1.14.10-4) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../4-libexpat1_2.6.3-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.3-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../5-dbus-daemon_1.14.10-4+b1_amd64.deb ... Unpacking dbus-daemon (1.14.10-4+b1) ... Selecting previously unselected package adduser. Preparing to unpack .../6-adduser_3.137_all.deb ... Unpacking adduser (3.137) ... Setting up adduser (3.137) ... Selecting previously unselected package dbus-system-bus-common. (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 ... 6254 files and directories currently installed.) Preparing to unpack .../0-dbus-system-bus-common_1.14.10-4_all.deb ... Unpacking dbus-system-bus-common (1.14.10-4) ... Selecting previously unselected package dbus. Preparing to unpack .../1-dbus_1.14.10-4+b1_amd64.deb ... Unpacking dbus (1.14.10-4+b1) ... Selecting previously unselected package perl-modules-5.38. Preparing to unpack .../2-perl-modules-5.38_5.38.2-5_all.deb ... Unpacking perl-modules-5.38 (5.38.2-5) ... Selecting previously unselected package libgdbm6t64:amd64. Preparing to unpack .../3-libgdbm6t64_1.24-2_amd64.deb ... Unpacking libgdbm6t64:amd64 (1.24-2) ... Selecting previously unselected package libgdbm-compat4t64:amd64. Preparing to unpack .../4-libgdbm-compat4t64_1.24-2_amd64.deb ... Unpacking libgdbm-compat4t64:amd64 (1.24-2) ... Selecting previously unselected package libperl5.38t64:amd64. Preparing to unpack .../5-libperl5.38t64_5.38.2-5_amd64.deb ... Unpacking libperl5.38t64:amd64 (5.38.2-5) ... Selecting previously unselected package perl. Preparing to unpack .../6-perl_5.38.2-5_amd64.deb ... Unpacking perl (5.38.2-5) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../7-libpython3.12-minimal_3.12.6-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.6-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../8-python3.12-minimal_3.12.6-1_amd64.deb ... Unpacking python3.12-minimal (3.12.6-1) ... Setting up libpython3.12-minimal:amd64 (3.12.6-1) ... Setting up libexpat1:amd64 (2.6.3-1) ... Setting up python3.12-minimal (3.12.6-1) ... Selecting previously unselected package python3-minimal. (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 ... 8612 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_amd64.deb ... Unpacking python3-minimal (3.12.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../03-libncursesw6_6.5-2_amd64.deb ... Unpacking libncursesw6:amd64 (6.5-2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../05-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../06-libkeyutils1_1.6.3-3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-3) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../07-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../08-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../09-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../10-libtirpc3t64_1.3.4+ds-1.3_amd64.deb ... 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 (1.3.4+ds-1.3) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../11-libnsl2_1.3.0-3+b2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b2) ... Selecting previously unselected package readline-common. Preparing to unpack .../12-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../13-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../14-libsqlite3-0_3.46.0-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.46.0-1) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.6-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.6-1_amd64.deb ... Unpacking python3.12 (3.12.6-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... Selecting previously unselected package python3. (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 ... 9169 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.6-1_amd64.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../004-openssl_3.3.2-1_amd64.deb ... Unpacking openssl (3.3.2-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../005-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libpam-systemd:amd64. Preparing to unpack .../006-libpam-systemd_256.6-1_amd64.deb ... Unpacking libpam-systemd:amd64 (256.6-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../007-libedit2_3.1-20240808-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20240808-1) ... Selecting previously unselected package libcbor0.10:amd64. Preparing to unpack .../008-libcbor0.10_0.10.2-2_amd64.deb ... Unpacking libcbor0.10:amd64 (0.10.2-2) ... Selecting previously unselected package libfido2-1:amd64. Preparing to unpack .../009-libfido2-1_1.15.0-1_amd64.deb ... Unpacking libfido2-1:amd64 (1.15.0-1) ... Selecting previously unselected package openssh-client. Preparing to unpack .../010-openssh-client_1%3a9.9p1-1_amd64.deb ... Unpacking openssh-client (1:9.9p1-1) ... Selecting previously unselected package ucf. Preparing to unpack .../011-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package adapterremoval. Preparing to unpack .../012-adapterremoval_2.3.3-3_amd64.deb ... Unpacking adapterremoval (2.3.3-3) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../013-libgdk-pixbuf2.0-common_2.42.12+dfsg-1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... Selecting previously unselected package libatomic1:amd64. Preparing to unpack .../014-libatomic1_14.2.0-3_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-3) ... Selecting previously unselected package libglib2.0-0t64:amd64. Preparing to unpack .../015-libglib2.0-0t64_2.82.1-1_amd64.deb ... Unpacking libglib2.0-0t64:amd64 (2.82.1-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../016-libicu72_72.1-5_amd64.deb ... Unpacking libicu72:amd64 (72.1-5) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../017-libxml2_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../018-shared-mime-info_2.4-5+b1_amd64.deb ... Unpacking shared-mime-info (2.4-5+b1) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../019-libjpeg62-turbo_1%3a2.1.5-3_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-3) ... Selecting previously unselected package libpng16-16t64:amd64. Preparing to unpack .../020-libpng16-16t64_1.6.44-2_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.44-2) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../021-libdeflate0_1.22-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.22-1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../022-libjbig0_2.1-6.1+b1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6.1+b1) ... Selecting previously unselected package liblerc4:amd64. Preparing to unpack .../023-liblerc4_4.0.0+ds-4+b1_amd64.deb ... Unpacking liblerc4:amd64 (4.0.0+ds-4+b1) ... Selecting previously unselected package libsharpyuv0:amd64. Preparing to unpack .../024-libsharpyuv0_1.4.0-0.1_amd64.deb ... Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... Selecting previously unselected package libwebp7:amd64. Preparing to unpack .../025-libwebp7_1.4.0-0.1_amd64.deb ... Unpacking libwebp7:amd64 (1.4.0-0.1) ... Selecting previously unselected package libtiff6:amd64. Preparing to unpack .../026-libtiff6_4.5.1+git230720-5_amd64.deb ... Unpacking libtiff6:amd64 (4.5.1+git230720-5) ... Selecting previously unselected package libgdk-pixbuf-2.0-0:amd64. Preparing to unpack .../027-libgdk-pixbuf-2.0-0_2.42.12+dfsg-1_amd64.deb ... Unpacking libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... Selecting previously unselected package gtk-update-icon-cache. Preparing to unpack .../028-gtk-update-icon-cache_4.16.3+ds-1_amd64.deb ... No diversion 'diversion of /usr/sbin/update-icon-caches to /usr/sbin/update-icon-caches.gtk2 by libgtk-3-bin', none removed. No diversion 'diversion of /usr/share/man/man8/update-icon-caches.8.gz to /usr/share/man/man8/update-icon-caches.gtk2.8.gz by libgtk-3-bin', none removed. Unpacking gtk-update-icon-cache (4.16.3+ds-1) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../029-hicolor-icon-theme_0.18-1_all.deb ... Unpacking hicolor-icon-theme (0.18-1) ... Selecting previously unselected package adwaita-icon-theme. Preparing to unpack .../030-adwaita-icon-theme_47.0-1_all.deb ... Unpacking adwaita-icon-theme (47.0-1) ... Selecting previously unselected package at-spi2-common. Preparing to unpack .../031-at-spi2-common_2.54.0-1_all.deb ... Unpacking at-spi2-common (2.54.0-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../032-libbrotli1_1.1.0-2+b4_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b4) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../033-libsasl2-modules-db_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../034-libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../035-libldap-2.5-0_2.5.18+dfsg-3_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../036-libnghttp2-14_1.63.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.63.0-1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../037-libnghttp3-9_1.4.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.4.0-1) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../038-libngtcp2-16_1.6.0-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.6.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../039-libngtcp2-crypto-gnutls8_1.6.0-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../040-libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../041-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../042-libssh2-1t64_1.11.0-7_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-7) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../043-libcurl3t64-gnutls_8.10.1-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.10.1-1) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../044-libhtscodecs2_1.6.1-1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../045-libhts3t64_1.20+ds-1_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-1) ... Selecting previously unselected package bcftools. Preparing to unpack .../046-bcftools_1.20-2_amd64.deb ... Unpacking bcftools (1.20-2) ... Selecting previously unselected package bedtools. Preparing to unpack .../047-bedtools_2.31.1+dfsg-2_amd64.deb ... Unpacking bedtools (2.31.1+dfsg-2) ... Selecting previously unselected package bowtie2. Preparing to unpack .../048-bowtie2_2.5.4-1_amd64.deb ... Unpacking bowtie2 (2.5.4-1) ... Selecting previously unselected package bwa. Preparing to unpack .../049-bwa_0.7.18-1_amd64.deb ... Unpacking bwa (0.7.18-1) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../050-ca-certificates-java_20240118_all.deb ... Unpacking ca-certificates-java (20240118) ... Selecting previously unselected package dbus-user-session. Preparing to unpack .../051-dbus-user-session_1.14.10-4+b1_amd64.deb ... Unpacking dbus-user-session (1.14.10-4+b1) ... Selecting previously unselected package libdconf1:amd64. Preparing to unpack .../052-libdconf1_0.40.0-4+b2_amd64.deb ... Unpacking libdconf1:amd64 (0.40.0-4+b2) ... Selecting previously unselected package dconf-service. Preparing to unpack .../053-dconf-service_0.40.0-4+b2_amd64.deb ... Unpacking dconf-service (0.40.0-4+b2) ... Selecting previously unselected package dconf-gsettings-backend:amd64. Preparing to unpack .../054-dconf-gsettings-backend_0.40.0-4+b2_amd64.deb ... Unpacking dconf-gsettings-backend:amd64 (0.40.0-4+b2) ... Selecting previously unselected package java-common. Preparing to unpack .../055-java-common_0.76_all.deb ... Unpacking java-common (0.76) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../056-liblcms2-2_2.14-2+b1_amd64.deb ... Unpacking liblcms2-2:amd64 (2.14-2+b1) ... Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../057-libnspr4_2%3a4.35-1.1+b1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.35-1.1+b1) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../058-libnss3_2%3a3.105-2_amd64.deb ... Unpacking libnss3:amd64 (2:3.105-2) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../059-libpcsclite1_2.3.0-1_amd64.deb ... Unpacking libpcsclite1:amd64 (2.3.0-1) ... Selecting previously unselected package openjdk-21-jre-headless:amd64. Preparing to unpack .../060-openjdk-21-jre-headless_21.0.5~8ea-1_amd64.deb ... Unpacking openjdk-21-jre-headless:amd64 (21.0.5~8ea-1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../061-default-jre-headless_2%3a1.21-76_amd64.deb ... Unpacking default-jre-headless (2:1.21-76) ... Selecting previously unselected package libatk1.0-0t64:amd64. Preparing to unpack .../062-libatk1.0-0t64_2.54.0-1_amd64.deb ... Unpacking libatk1.0-0t64:amd64 (2.54.0-1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../063-libxau6_1%3a1.0.9-1+b1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1+b1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../064-libxdmcp6_1%3a1.1.2-3+b1_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3+b1) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../065-libxcb1_1.17.0-2_amd64.deb ... Unpacking libxcb1:amd64 (1.17.0-2) ... Selecting previously unselected package libx11-data. Preparing to unpack .../066-libx11-data_2%3a1.8.7-1_all.deb ... Unpacking libx11-data (2:1.8.7-1) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../067-libx11-6_2%3a1.8.7-1+b1_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.7-1+b1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../068-libxext6_2%3a1.3.4-1+b1_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.4-1+b1) ... Selecting previously unselected package libxi6:amd64. Preparing to unpack .../069-libxi6_2%3a1.8.2-1_amd64.deb ... Unpacking libxi6:amd64 (2:1.8.2-1) ... Selecting previously unselected package libatspi2.0-0t64:amd64. Preparing to unpack .../070-libatspi2.0-0t64_2.54.0-1_amd64.deb ... Unpacking libatspi2.0-0t64:amd64 (2.54.0-1) ... Selecting previously unselected package libatk-bridge2.0-0t64:amd64. Preparing to unpack .../071-libatk-bridge2.0-0t64_2.54.0-1_amd64.deb ... Unpacking libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../072-libfreetype6_2.13.3+dfsg-1_amd64.deb ... Unpacking libfreetype6:amd64 (2.13.3+dfsg-1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../073-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../074-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../075-fontconfig-config_2.15.0-1.1_amd64.deb ... Unpacking fontconfig-config (2.15.0-1.1) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../076-libfontconfig1_2.15.0-1.1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.15.0-1.1) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../077-libpixman-1-0_0.42.2-1+b1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.42.2-1+b1) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../078-libxcb-render0_1.17.0-2_amd64.deb ... Unpacking libxcb-render0:amd64 (1.17.0-2) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../079-libxcb-shm0_1.17.0-2_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.17.0-2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../080-libxrender1_1%3a0.9.10-1.1+b1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1.1+b1) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../081-libcairo2_1.18.2-2_amd64.deb ... Unpacking libcairo2:amd64 (1.18.2-2) ... Selecting previously unselected package libcairo-gobject2:amd64. Preparing to unpack .../082-libcairo-gobject2_1.18.2-2_amd64.deb ... Unpacking libcairo-gobject2:amd64 (1.18.2-2) ... Selecting previously unselected package libcloudproviders0:amd64. Preparing to unpack .../083-libcloudproviders0_0.3.6-1_amd64.deb ... Unpacking libcloudproviders0:amd64 (0.3.6-1) ... Selecting previously unselected package libcolord2:amd64. Preparing to unpack .../084-libcolord2_1.4.7-1+b1_amd64.deb ... Unpacking libcolord2:amd64 (1.4.7-1+b1) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../085-libavahi-common-data_0.8-13+b2_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.8-13+b2) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../086-libavahi-common3_0.8-13+b2_amd64.deb ... Unpacking libavahi-common3:amd64 (0.8-13+b2) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../087-libavahi-client3_0.8-13+b2_amd64.deb ... Unpacking libavahi-client3:amd64 (0.8-13+b2) ... Selecting previously unselected package libcups2t64:amd64. Preparing to unpack .../088-libcups2t64_2.4.10-2_amd64.deb ... Unpacking libcups2t64:amd64 (2.4.10-2) ... Selecting previously unselected package libepoxy0:amd64. Preparing to unpack .../089-libepoxy0_1.5.10-2_amd64.deb ... Unpacking libepoxy0:amd64 (1.5.10-2) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../090-libfribidi0_1.0.15-1_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.15-1) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../091-libgraphite2-3_1.3.14-2_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-2) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../092-libharfbuzz0b_9.0.0-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (9.0.0-1) ... Selecting previously unselected package fontconfig. Preparing to unpack .../093-fontconfig_2.15.0-1.1_amd64.deb ... Unpacking fontconfig (2.15.0-1.1) ... Selecting previously unselected package libthai-data. Preparing to unpack .../094-libthai-data_0.1.29-2_all.deb ... Unpacking libthai-data (0.1.29-2) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../095-libdatrie1_0.2.13-3_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.13-3) ... Selecting previously unselected package libthai0:amd64. Preparing to unpack .../096-libthai0_0.1.29-2_amd64.deb ... Unpacking libthai0:amd64 (0.1.29-2) ... Selecting previously unselected package libpango-1.0-0:amd64. Preparing to unpack .../097-libpango-1.0-0_1.54.0+ds-2_amd64.deb ... Unpacking libpango-1.0-0:amd64 (1.54.0+ds-2) ... Selecting previously unselected package libpangoft2-1.0-0:amd64. Preparing to unpack .../098-libpangoft2-1.0-0_1.54.0+ds-2_amd64.deb ... Unpacking libpangoft2-1.0-0:amd64 (1.54.0+ds-2) ... Selecting previously unselected package libpangocairo-1.0-0:amd64. Preparing to unpack .../099-libpangocairo-1.0-0_1.54.0+ds-2_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.54.0+ds-2) ... Selecting previously unselected package libwayland-client0:amd64. Preparing to unpack .../100-libwayland-client0_1.23.0-1_amd64.deb ... Unpacking libwayland-client0:amd64 (1.23.0-1) ... Selecting previously unselected package libwayland-cursor0:amd64. Preparing to unpack .../101-libwayland-cursor0_1.23.0-1_amd64.deb ... Unpacking libwayland-cursor0:amd64 (1.23.0-1) ... Selecting previously unselected package libwayland-egl1:amd64. Preparing to unpack .../102-libwayland-egl1_1.23.0-1_amd64.deb ... Unpacking libwayland-egl1:amd64 (1.23.0-1) ... Selecting previously unselected package libxcomposite1:amd64. Preparing to unpack .../103-libxcomposite1_1%3a0.4.5-1+b1_amd64.deb ... Unpacking libxcomposite1:amd64 (1:0.4.5-1+b1) ... Selecting previously unselected package libxfixes3:amd64. Preparing to unpack .../104-libxfixes3_1%3a6.0.0-2+b1_amd64.deb ... Unpacking libxfixes3:amd64 (1:6.0.0-2+b1) ... Selecting previously unselected package libxcursor1:amd64. Preparing to unpack .../105-libxcursor1_1%3a1.2.2-1_amd64.deb ... Unpacking libxcursor1:amd64 (1:1.2.2-1) ... Selecting previously unselected package libxdamage1:amd64. Preparing to unpack .../106-libxdamage1_1%3a1.1.6-1+b1_amd64.deb ... Unpacking libxdamage1:amd64 (1:1.1.6-1+b1) ... Selecting previously unselected package libxinerama1:amd64. Preparing to unpack .../107-libxinerama1_2%3a1.1.4-3+b1_amd64.deb ... Unpacking libxinerama1:amd64 (2:1.1.4-3+b1) ... Selecting previously unselected package xkb-data. Preparing to unpack .../108-xkb-data_2.42-1_all.deb ... Unpacking xkb-data (2.42-1) ... Selecting previously unselected package libxkbcommon0:amd64. Preparing to unpack .../109-libxkbcommon0_1.6.0-1+b1_amd64.deb ... Unpacking libxkbcommon0:amd64 (1.6.0-1+b1) ... Selecting previously unselected package libxrandr2:amd64. Preparing to unpack .../110-libxrandr2_2%3a1.5.4-1_amd64.deb ... Unpacking libxrandr2:amd64 (2:1.5.4-1) ... Selecting previously unselected package libgtk-3-common. Preparing to unpack .../111-libgtk-3-common_3.24.43-4_all.deb ... Unpacking libgtk-3-common (3.24.43-4) ... Selecting previously unselected package libgtk-3-0t64:amd64. Preparing to unpack .../112-libgtk-3-0t64_3.24.43-4_amd64.deb ... Unpacking libgtk-3-0t64:amd64 (3.24.43-4) ... Selecting previously unselected package libglvnd0:amd64. Preparing to unpack .../113-libglvnd0_1.7.0-1+b1_amd64.deb ... Unpacking libglvnd0:amd64 (1.7.0-1+b1) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../114-libdrm-common_2.4.123-1_all.deb ... Unpacking libdrm-common (2.4.123-1) ... Selecting previously unselected package libdrm2:amd64. Preparing to unpack .../115-libdrm2_2.4.123-1_amd64.deb ... Unpacking libdrm2:amd64 (2.4.123-1) ... Selecting previously unselected package libglapi-mesa:amd64. Preparing to unpack .../116-libglapi-mesa_24.2.4-1_amd64.deb ... Unpacking libglapi-mesa:amd64 (24.2.4-1) ... Selecting previously unselected package libx11-xcb1:amd64. Preparing to unpack .../117-libx11-xcb1_2%3a1.8.7-1+b1_amd64.deb ... Unpacking libx11-xcb1:amd64 (2:1.8.7-1+b1) ... Selecting previously unselected package libxcb-dri2-0:amd64. Preparing to unpack .../118-libxcb-dri2-0_1.17.0-2_amd64.deb ... Unpacking libxcb-dri2-0:amd64 (1.17.0-2) ... Selecting previously unselected package libxcb-dri3-0:amd64. Preparing to unpack .../119-libxcb-dri3-0_1.17.0-2_amd64.deb ... Unpacking libxcb-dri3-0:amd64 (1.17.0-2) ... Selecting previously unselected package libxcb-glx0:amd64. Preparing to unpack .../120-libxcb-glx0_1.17.0-2_amd64.deb ... Unpacking libxcb-glx0:amd64 (1.17.0-2) ... Selecting previously unselected package libxcb-present0:amd64. Preparing to unpack .../121-libxcb-present0_1.17.0-2_amd64.deb ... Unpacking libxcb-present0:amd64 (1.17.0-2) ... Selecting previously unselected package libxcb-randr0:amd64. Preparing to unpack .../122-libxcb-randr0_1.17.0-2_amd64.deb ... Unpacking libxcb-randr0:amd64 (1.17.0-2) ... Selecting previously unselected package libxcb-sync1:amd64. Preparing to unpack .../123-libxcb-sync1_1.17.0-2_amd64.deb ... Unpacking libxcb-sync1:amd64 (1.17.0-2) ... Selecting previously unselected package libxcb-xfixes0:amd64. Preparing to unpack .../124-libxcb-xfixes0_1.17.0-2_amd64.deb ... Unpacking libxcb-xfixes0:amd64 (1.17.0-2) ... Selecting previously unselected package libxshmfence1:amd64. Preparing to unpack .../125-libxshmfence1_1.3-1+b1_amd64.deb ... Unpacking libxshmfence1:amd64 (1.3-1+b1) ... Selecting previously unselected package libxxf86vm1:amd64. Preparing to unpack .../126-libxxf86vm1_1%3a1.1.4-1+b2_amd64.deb ... Unpacking libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Selecting previously unselected package libdrm-amdgpu1:amd64. Preparing to unpack .../127-libdrm-amdgpu1_2.4.123-1_amd64.deb ... Unpacking libdrm-amdgpu1:amd64 (2.4.123-1) ... Selecting previously unselected package libpciaccess0:amd64. Preparing to unpack .../128-libpciaccess0_0.17-3+b1_amd64.deb ... Unpacking libpciaccess0:amd64 (0.17-3+b1) ... Selecting previously unselected package libdrm-intel1:amd64. Preparing to unpack .../129-libdrm-intel1_2.4.123-1_amd64.deb ... Unpacking libdrm-intel1:amd64 (2.4.123-1) ... Selecting previously unselected package libdrm-radeon1:amd64. Preparing to unpack .../130-libdrm-radeon1_2.4.123-1_amd64.deb ... Unpacking libdrm-radeon1:amd64 (2.4.123-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../131-libelf1t64_0.191-2_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-2) ... Selecting previously unselected package libz3-4:amd64. Preparing to unpack .../132-libz3-4_4.8.12-3.1+b2_amd64.deb ... Unpacking libz3-4:amd64 (4.8.12-3.1+b2) ... Selecting previously unselected package libllvm19:amd64. Preparing to unpack .../133-libllvm19_1%3a19.1.1-1_amd64.deb ... Unpacking libllvm19:amd64 (1:19.1.1-1) ... Selecting previously unselected package libsensors-config. Preparing to unpack .../134-libsensors-config_1%3a3.6.0-10_all.deb ... Unpacking libsensors-config (1:3.6.0-10) ... Selecting previously unselected package libsensors5:amd64. Preparing to unpack .../135-libsensors5_1%3a3.6.0-10_amd64.deb ... Unpacking libsensors5:amd64 (1:3.6.0-10) ... Selecting previously unselected package mesa-libgallium:amd64. Preparing to unpack .../136-mesa-libgallium_24.2.4-1_amd64.deb ... Unpacking mesa-libgallium:amd64 (24.2.4-1) ... Selecting previously unselected package libvulkan1:amd64. Preparing to unpack .../137-libvulkan1_1.3.290.0-1_amd64.deb ... Unpacking libvulkan1:amd64 (1.3.290.0-1) ... Selecting previously unselected package libwayland-server0:amd64. Preparing to unpack .../138-libwayland-server0_1.23.0-1_amd64.deb ... Unpacking libwayland-server0:amd64 (1.23.0-1) ... Selecting previously unselected package libgbm1:amd64. Preparing to unpack .../139-libgbm1_24.2.4-1_amd64.deb ... Unpacking libgbm1:amd64 (24.2.4-1) ... Selecting previously unselected package libgl1-mesa-dri:amd64. Preparing to unpack .../140-libgl1-mesa-dri_24.2.4-1_amd64.deb ... Unpacking libgl1-mesa-dri:amd64 (24.2.4-1) ... Selecting previously unselected package libglx-mesa0:amd64. Preparing to unpack .../141-libglx-mesa0_24.2.4-1_amd64.deb ... Unpacking libglx-mesa0:amd64 (24.2.4-1) ... Selecting previously unselected package libglx0:amd64. Preparing to unpack .../142-libglx0_1.7.0-1+b1_amd64.deb ... Unpacking libglx0:amd64 (1.7.0-1+b1) ... Selecting previously unselected package libgl1:amd64. Preparing to unpack .../143-libgl1_1.7.0-1+b1_amd64.deb ... Unpacking libgl1:amd64 (1.7.0-1+b1) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../144-libasound2-data_1.2.12-1_all.deb ... Unpacking libasound2-data (1.2.12-1) ... Selecting previously unselected package libasound2t64:amd64. Preparing to unpack .../145-libasound2t64_1.2.12-1_amd64.deb ... Unpacking libasound2t64:amd64 (1.2.12-1) ... Selecting previously unselected package libgif7:amd64. Preparing to unpack .../146-libgif7_5.2.2-1_amd64.deb ... Unpacking libgif7:amd64 (5.2.2-1) ... Selecting previously unselected package x11-common. Preparing to unpack .../147-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package libxtst6:amd64. Preparing to unpack .../148-libxtst6_2%3a1.2.3-1.1+b1_amd64.deb ... Unpacking libxtst6:amd64 (2:1.2.3-1.1+b1) ... Selecting previously unselected package openjdk-21-jre:amd64. Preparing to unpack .../149-openjdk-21-jre_21.0.5~8ea-1_amd64.deb ... Unpacking openjdk-21-jre:amd64 (21.0.5~8ea-1) ... Selecting previously unselected package default-jre. Preparing to unpack .../150-default-jre_2%3a1.21-76_amd64.deb ... Unpacking default-jre (2:1.21-76) ... Selecting previously unselected package libevent-core-2.1-7t64:amd64. Preparing to unpack .../151-libevent-core-2.1-7t64_2.1.12-stable-10_amd64.deb ... Unpacking libevent-core-2.1-7t64:amd64 (2.1.12-stable-10) ... Selecting previously unselected package libevent-pthreads-2.1-7t64:amd64. Preparing to unpack .../152-libevent-pthreads-2.1-7t64_2.1.12-stable-10_amd64.deb ... Unpacking libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10) ... Selecting previously unselected package libnl-3-200:amd64. Preparing to unpack .../153-libnl-3-200_3.7.0-0.3_amd64.deb ... Unpacking libnl-3-200:amd64 (3.7.0-0.3) ... Selecting previously unselected package libnl-route-3-200:amd64. Preparing to unpack .../154-libnl-route-3-200_3.7.0-0.3_amd64.deb ... Unpacking libnl-route-3-200:amd64 (3.7.0-0.3) ... Selecting previously unselected package libibverbs1:amd64. Preparing to unpack .../155-libibverbs1_52.0-2_amd64.deb ... Unpacking libibverbs1:amd64 (52.0-2) ... Selecting previously unselected package ibverbs-providers:amd64. Preparing to unpack .../156-ibverbs-providers_52.0-2_amd64.deb ... Unpacking ibverbs-providers:amd64 (52.0-2) ... Selecting previously unselected package libpsm-infinipath1. Preparing to unpack .../157-libpsm-infinipath1_3.3+20.604758e7-6.3_amd64.deb ... Unpacking libpsm-infinipath1 (3.3+20.604758e7-6.3) ... Selecting previously unselected package libnuma1:amd64. Preparing to unpack .../158-libnuma1_2.0.18-1_amd64.deb ... Unpacking libnuma1:amd64 (2.0.18-1) ... Selecting previously unselected package libpsm2-2. Preparing to unpack .../159-libpsm2-2_11.2.185-2.1_amd64.deb ... Unpacking libpsm2-2 (11.2.185-2.1) ... Selecting previously unselected package librdmacm1t64:amd64. Preparing to unpack .../160-librdmacm1t64_52.0-2_amd64.deb ... Unpacking librdmacm1t64:amd64 (52.0-2) ... Selecting previously unselected package libfabric1:amd64. Preparing to unpack .../161-libfabric1_1.17.0-3+b1_amd64.deb ... Unpacking libfabric1:amd64 (1.17.0-3+b1) ... Selecting previously unselected package libhwloc15:amd64. Preparing to unpack .../162-libhwloc15_2.11.2-1_amd64.deb ... Unpacking libhwloc15:amd64 (2.11.2-1) ... Selecting previously unselected package libmunge2:amd64. Preparing to unpack .../163-libmunge2_0.5.15-4_amd64.deb ... Unpacking libmunge2:amd64 (0.5.15-4) ... Selecting previously unselected package libxnvctrl0:amd64. Preparing to unpack .../164-libxnvctrl0_535.171.04-1_amd64.deb ... Unpacking libxnvctrl0:amd64 (535.171.04-1) ... Selecting previously unselected package ocl-icd-libopencl1:amd64. Preparing to unpack .../165-ocl-icd-libopencl1_2.3.2-1+b1_amd64.deb ... Unpacking ocl-icd-libopencl1:amd64 (2.3.2-1+b1) ... Selecting previously unselected package libhwloc-plugins:amd64. Preparing to unpack .../166-libhwloc-plugins_2.11.2-1_amd64.deb ... Unpacking libhwloc-plugins:amd64 (2.11.2-1) ... Selecting previously unselected package libpmix2t64:amd64. Preparing to unpack .../167-libpmix2t64_5.0.3-2_amd64.deb ... Unpacking libpmix2t64:amd64 (5.0.3-2) ... Selecting previously unselected package libllvm17t64:amd64. Preparing to unpack .../168-libllvm17t64_1%3a17.0.6-18_amd64.deb ... Unpacking libllvm17t64:amd64 (1:17.0.6-18) ... Selecting previously unselected package libamd-comgr2:amd64. Preparing to unpack .../169-libamd-comgr2_6.0+git20231212.4510c28+dfsg-3+b1_amd64.deb ... Unpacking libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b1) ... Selecting previously unselected package libhsakmt1:amd64. Preparing to unpack .../170-libhsakmt1_5.7.0-1_amd64.deb ... Unpacking libhsakmt1:amd64 (5.7.0-1) ... Selecting previously unselected package libhsa-runtime64-1:amd64. Preparing to unpack .../171-libhsa-runtime64-1_5.7.1-3_amd64.deb ... Unpacking libhsa-runtime64-1:amd64 (5.7.1-3) ... Selecting previously unselected package libamdhip64-5. Preparing to unpack .../172-libamdhip64-5_5.7.1-5_amd64.deb ... Unpacking libamdhip64-5 (5.7.1-5) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../173-libgomp1_14.2.0-3_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-3) ... Selecting previously unselected package libibumad3:amd64. Preparing to unpack .../174-libibumad3_52.0-2_amd64.deb ... Unpacking libibumad3:amd64 (52.0-2) ... Selecting previously unselected package libibmad5:amd64. Preparing to unpack .../175-libibmad5_52.0-2_amd64.deb ... Unpacking libibmad5:amd64 (52.0-2) ... Selecting previously unselected package libucx0:amd64. Preparing to unpack .../176-libucx0_1.17.0+ds-3_amd64.deb ... Unpacking libucx0:amd64 (1.17.0+ds-3) ... Selecting previously unselected package libopenmpi3t64:amd64. Preparing to unpack .../177-libopenmpi3t64_4.1.6-13.3_amd64.deb ... Unpacking libopenmpi3t64:amd64 (4.1.6-13.3) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../178-openmpi-common_4.1.6-13.3_all.deb ... Unpacking openmpi-common (4.1.6-13.3) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../179-openmpi-bin_4.1.6-13.3_amd64.deb ... Unpacking openmpi-bin (4.1.6-13.3) ... Selecting previously unselected package examl. Preparing to unpack .../180-examl_3.0.22-5+b1_amd64.deb ... Unpacking examl (3.0.22-5+b1) ... Selecting previously unselected package libapache-pom-java. Preparing to unpack .../181-libapache-pom-java_29-2_all.deb ... Unpacking libapache-pom-java (29-2) ... Selecting previously unselected package libcommons-parent-java. Preparing to unpack .../182-libcommons-parent-java_56-1_all.deb ... Unpacking libcommons-parent-java (56-1) ... Selecting previously unselected package libcommons-lang3-java. Preparing to unpack .../183-libcommons-lang3-java_3.14.0-1_all.deb ... Unpacking libcommons-lang3-java (3.14.0-1) ... Selecting previously unselected package libfreemarker-java. Preparing to unpack .../184-libfreemarker-java_2.3.32-2_all.deb ... Unpacking libfreemarker-java (2.3.32-2) ... Selecting previously unselected package libgoogle-gson-java. Preparing to unpack .../185-libgoogle-gson-java_2.10.1-1_all.deb ... Unpacking libgoogle-gson-java (2.10.1-1) ... Selecting previously unselected package libjoptsimple-java. Preparing to unpack .../186-libjoptsimple-java_5.0.4-4_all.deb ... Unpacking libjoptsimple-java (5.0.4-4) ... Selecting previously unselected package libcommons-codec-java. Preparing to unpack .../187-libcommons-codec-java_1.16.0-1_all.deb ... Unpacking libcommons-codec-java (1.16.0-1) ... Selecting previously unselected package libcommons-logging-java. Preparing to unpack .../188-libcommons-logging-java_1.3.0-1_all.deb ... Unpacking libcommons-logging-java (1.3.0-1) ... Selecting previously unselected package libhttpcore-java. Preparing to unpack .../189-libhttpcore-java_4.4.16-1_all.deb ... Unpacking libhttpcore-java (4.4.16-1) ... Selecting previously unselected package libhttpclient-java. Preparing to unpack .../190-libhttpclient-java_4.5.14-1_all.deb ... Unpacking libhttpclient-java (4.5.14-1) ... Selecting previously unselected package liblightcouch-java. Preparing to unpack .../191-liblightcouch-java_0.2.0-1_all.deb ... Unpacking liblightcouch-java (0.2.0-1) ... Selecting previously unselected package libmongodb-java. Preparing to unpack .../192-libmongodb-java_3.6.3-2_all.deb ... Unpacking libmongodb-java (3.6.3-2) ... Selecting previously unselected package libslf4j-java. Preparing to unpack .../193-libslf4j-java_1.7.32-1_all.deb ... Unpacking libslf4j-java (1.7.32-1) ... Selecting previously unselected package liblog4j2-java. Preparing to unpack .../194-liblog4j2-java_2.19.0-2_all.deb ... Unpacking liblog4j2-java (2.19.0-2) ... Selecting previously unselected package libbarclay-java. Preparing to unpack .../195-libbarclay-java_5.0.0+dfsg-1_all.deb ... Unpacking libbarclay-java (5.0.0+dfsg-1) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../196-libblas3_3.12.0-3_amd64.deb ... Unpacking libblas3:amd64 (3.12.0-3) ... Selecting previously unselected package libcommons-compress-java. Preparing to unpack .../197-libcommons-compress-java_1.25.0-1_all.deb ... Unpacking libcommons-compress-java (1.25.0-1) ... Selecting previously unselected package libcommons-io-java. Preparing to unpack .../198-libcommons-io-java_2.16.1-1_all.deb ... Unpacking libcommons-io-java (2.16.1-1) ... Selecting previously unselected package libcommons-jexl2-java. Preparing to unpack .../199-libcommons-jexl2-java_2.1.1-6_all.deb ... Unpacking libcommons-jexl2-java (2.1.1-6) ... Selecting previously unselected package libcommons-math3-java. Preparing to unpack .../200-libcommons-math3-java_3.6.1-3_all.deb ... Unpacking libcommons-math3-java (3.6.1-3) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../201-libcurl4t64_8.10.1-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.10.1-1) ... Selecting previously unselected package libgatk-native-bindings-java. Preparing to unpack .../202-libgatk-native-bindings-java_1.0.0+dfsg-2_all.deb ... Unpacking libgatk-native-bindings-java (1.0.0+dfsg-2) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../203-libgfortran5_14.2.0-3_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-3) ... Selecting previously unselected package libmjson-java. Preparing to unpack .../204-libmjson-java_1.4.0-3_all.deb ... Unpacking libmjson-java (1.4.0-3) ... Selecting previously unselected package libmbedcrypto7t64:amd64. Preparing to unpack .../205-libmbedcrypto7t64_2.28.8-1_amd64.deb ... Unpacking libmbedcrypto7t64:amd64 (2.28.8-1) ... Selecting previously unselected package libmbedx509-1t64:amd64. Preparing to unpack .../206-libmbedx509-1t64_2.28.8-1_amd64.deb ... Unpacking libmbedx509-1t64:amd64 (2.28.8-1) ... Selecting previously unselected package libmbedtls14t64:amd64. Preparing to unpack .../207-libmbedtls14t64_2.28.8-1_amd64.deb ... Unpacking libmbedtls14t64:amd64 (2.28.8-1) ... Selecting previously unselected package ncbi-vdb-data. Preparing to unpack .../208-ncbi-vdb-data_3.0.2+dfsg-2_all.deb ... Unpacking ncbi-vdb-data (3.0.2+dfsg-2) ... Selecting previously unselected package libncbi-vdb3:amd64. Preparing to unpack .../209-libncbi-vdb3_3.0.2+dfsg-2+b1_amd64.deb ... Unpacking libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Selecting previously unselected package libncbi-ngs3:amd64. Preparing to unpack .../210-libncbi-ngs3_3.0.3+dfsg-9_amd64.deb ... Unpacking libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package libngs-jni:amd64. Preparing to unpack .../211-libngs-jni_3.0.3+dfsg-9_amd64.deb ... Unpacking libngs-jni:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package libngs-java:amd64. Preparing to unpack .../212-libngs-java_3.0.3+dfsg-9_amd64.deb ... Unpacking libngs-java:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package librhino-java. Preparing to unpack .../213-librhino-java_1.7.14-2.1_all.deb ... Unpacking librhino-java (1.7.14-2.1) ... Selecting previously unselected package libsnappy1v5:amd64. Preparing to unpack .../214-libsnappy1v5_1.2.1-1_amd64.deb ... Unpacking libsnappy1v5:amd64 (1.2.1-1) ... Selecting previously unselected package libsnappy-jni. Preparing to unpack .../215-libsnappy-jni_1.1.10.5-2_amd64.deb ... Unpacking libsnappy-jni (1.1.10.5-2) ... Selecting previously unselected package libsnappy-java. Preparing to unpack .../216-libsnappy-java_1.1.10.5-2_all.deb ... Unpacking libsnappy-java (1.1.10.5-2) ... Selecting previously unselected package libhtsjdk-java. Preparing to unpack .../217-libhtsjdk-java_4.1.0+dfsg-2_all.deb ... Unpacking libhtsjdk-java (4.1.0+dfsg-2) ... Selecting previously unselected package libgkl-java. Preparing to unpack .../218-libgkl-java_0.8.11+dfsg-2_all.deb ... Unpacking libgkl-java (0.8.11+dfsg-2) ... Selecting previously unselected package libgslcblas0:amd64. Preparing to unpack .../219-libgslcblas0_2.8+dfsg-3_amd64.deb ... Unpacking libgslcblas0:amd64 (2.8+dfsg-3) ... Selecting previously unselected package libgsl28:amd64. Preparing to unpack .../220-libgsl28_2.8+dfsg-3_amd64.deb ... Unpacking libgsl28:amd64 (2.8+dfsg-3) ... Selecting previously unselected package libgsl-dev. Preparing to unpack .../221-libgsl-dev_2.8+dfsg-3_amd64.deb ... Unpacking libgsl-dev (2.8+dfsg-3) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../222-libice6_2%3a1.0.10-1+b1_amd64.deb ... Unpacking libice6:amd64 (2:1.0.10-1+b1) ... Selecting previously unselected package libopenblas0-pthread:amd64. Preparing to unpack .../223-libopenblas0-pthread_0.3.28+ds-2_amd64.deb ... Unpacking libopenblas0-pthread:amd64 (0.3.28+ds-2) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../224-liblapack3_3.12.0-3_amd64.deb ... Unpacking liblapack3:amd64 (3.12.0-3) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../225-libncurses6_6.5-2_amd64.deb ... Unpacking libncurses6:amd64 (6.5-2) ... Selecting previously unselected package libopenblas0:amd64. Preparing to unpack .../226-libopenblas0_0.3.28+ds-2_amd64.deb ... Unpacking libopenblas0:amd64 (0.3.28+ds-2) ... Selecting previously unselected package libopenblas-pthread-dev:amd64. Preparing to unpack .../227-libopenblas-pthread-dev_0.3.28+ds-2_amd64.deb ... Unpacking libopenblas-pthread-dev:amd64 (0.3.28+ds-2) ... Selecting previously unselected package libopenblas-dev:amd64. Preparing to unpack .../228-libopenblas-dev_0.3.28+ds-2_amd64.deb ... Unpacking libopenblas-dev:amd64 (0.3.28+ds-2) ... Selecting previously unselected package libpaper1:amd64. Preparing to unpack .../229-libpaper1_1.1.29+b1_amd64.deb ... Unpacking libpaper1:amd64 (1.1.29+b1) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../230-libpaper-utils_1.1.29+b1_amd64.deb ... Unpacking libpaper-utils (1.1.29+b1) ... Selecting previously unselected package libpicard-java. Preparing to unpack .../231-libpicard-java_3.1.1+dfsg-1_all.deb ... Unpacking libpicard-java (3.1.1+dfsg-1) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../232-libsm6_2%3a1.2.3-1+b1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.3-1+b1) ... Selecting previously unselected package libtcl8.6:amd64. Preparing to unpack .../233-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../234-libxft2_2.3.6-1+b1_amd64.deb ... Unpacking libxft2:amd64 (2.3.6-1+b1) ... Selecting previously unselected package libxss1:amd64. Preparing to unpack .../235-libxss1_1%3a1.2.3-1+b1_amd64.deb ... Unpacking libxss1:amd64 (1:1.2.3-1+b1) ... Selecting previously unselected package libtk8.6:amd64. Preparing to unpack .../236-libtk8.6_8.6.15-1_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.15-1) ... Selecting previously unselected package libxt6t64:amd64. Preparing to unpack .../237-libxt6t64_1%3a1.2.1-1.2_amd64.deb ... Unpacking libxt6t64:amd64 (1:1.2.1-1.2) ... Selecting previously unselected package zip. Preparing to unpack .../238-zip_3.0-14_amd64.deb ... Unpacking zip (3.0-14) ... Selecting previously unselected package unzip. Preparing to unpack .../239-unzip_6.0-28_amd64.deb ... Unpacking unzip (6.0-28) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../240-xdg-utils_1.1.3-4.1_all.deb ... Unpacking xdg-utils (1.1.3-4.1) ... Selecting previously unselected package r-base-core. Preparing to unpack .../241-r-base-core_4.4.1-3_amd64.deb ... Unpacking r-base-core (4.4.1-3) ... Selecting previously unselected package r-cran-littler. Preparing to unpack .../242-r-cran-littler_0.3.20-1_amd64.deb ... Unpacking r-cran-littler (0.3.20-1) ... Selecting previously unselected package littler. Preparing to unpack .../243-littler_0.3.20-1_all.deb ... Unpacking littler (0.3.20-1) ... Selecting previously unselected package mafft. Preparing to unpack .../244-mafft_7.505-1_amd64.deb ... Unpacking mafft (7.505-1) ... Selecting previously unselected package r-cran-codetools. Preparing to unpack .../245-r-cran-codetools_0.2-20-1_all.deb ... Unpacking r-cran-codetools (0.2-20-1) ... Selecting previously unselected package r-cran-iterators. Preparing to unpack .../246-r-cran-iterators_1.0.14-1_all.deb ... Unpacking r-cran-iterators (1.0.14-1) ... Selecting previously unselected package r-cran-foreach. Preparing to unpack .../247-r-cran-foreach_1.5.2-1_all.deb ... Unpacking r-cran-foreach (1.5.2-1) ... Selecting previously unselected package r-cran-gam. Preparing to unpack .../248-r-cran-gam_1.22-5-1_amd64.deb ... Unpacking r-cran-gam (1.22-5-1) ... Selecting previously unselected package r-cran-cli. Preparing to unpack .../249-r-cran-cli_3.6.3-1_amd64.deb ... Unpacking r-cran-cli (3.6.3-1) ... Selecting previously unselected package r-cran-glue. Preparing to unpack .../250-r-cran-glue_1.7.0-1_amd64.deb ... Unpacking r-cran-glue (1.7.0-1) ... Selecting previously unselected package r-cran-rlang. Preparing to unpack .../251-r-cran-rlang_1.1.4-1_amd64.deb ... Unpacking r-cran-rlang (1.1.4-1) ... Selecting previously unselected package r-cran-lifecycle. Preparing to unpack .../252-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... Selecting previously unselected package r-cran-gtable. Preparing to unpack .../253-r-cran-gtable_0.3.5+dfsg-1_all.deb ... Unpacking r-cran-gtable (0.3.5+dfsg-1) ... Selecting previously unselected package r-cran-isoband. Preparing to unpack .../254-r-cran-isoband_0.2.7-1_amd64.deb ... Unpacking r-cran-isoband (0.2.7-1) ... Selecting previously unselected package r-cran-mass. Preparing to unpack .../255-r-cran-mass_7.3-61-1_amd64.deb ... Unpacking r-cran-mass (7.3-61-1) ... Selecting previously unselected package r-cran-lattice. Preparing to unpack .../256-r-cran-lattice_0.22-6-1_amd64.deb ... Unpacking r-cran-lattice (0.22-6-1) ... Selecting previously unselected package r-cran-nlme. Preparing to unpack .../257-r-cran-nlme_3.1.166-1_amd64.deb ... Unpacking r-cran-nlme (3.1.166-1) ... Selecting previously unselected package r-cran-matrix. Preparing to unpack .../258-r-cran-matrix_1.7-0-3_amd64.deb ... Unpacking r-cran-matrix (1.7-0-3) ... Selecting previously unselected package r-cran-mgcv. Preparing to unpack .../259-r-cran-mgcv_1.9-1-1_amd64.deb ... Unpacking r-cran-mgcv (1.9-1-1) ... Selecting previously unselected package r-cran-farver. Preparing to unpack .../260-r-cran-farver_2.1.2-1_amd64.deb ... Unpacking r-cran-farver (2.1.2-1) ... Selecting previously unselected package r-cran-labeling. Preparing to unpack .../261-r-cran-labeling_0.4.3-1_all.deb ... Unpacking r-cran-labeling (0.4.3-1) ... Selecting previously unselected package r-cran-colorspace. Preparing to unpack .../262-r-cran-colorspace_2.1-1+dfsg-1_amd64.deb ... Unpacking r-cran-colorspace (2.1-1+dfsg-1) ... Selecting previously unselected package r-cran-munsell. Preparing to unpack .../263-r-cran-munsell_0.5.1-1_all.deb ... Unpacking r-cran-munsell (0.5.1-1) ... Selecting previously unselected package r-cran-r6. Preparing to unpack .../264-r-cran-r6_2.5.1-1_all.deb ... Unpacking r-cran-r6 (2.5.1-1) ... Selecting previously unselected package r-cran-rcolorbrewer. Preparing to unpack .../265-r-cran-rcolorbrewer_1.1-3-1_all.deb ... Unpacking r-cran-rcolorbrewer (1.1-3-1) ... Selecting previously unselected package r-cran-viridislite. Preparing to unpack .../266-r-cran-viridislite_0.4.2-2_all.deb ... Unpacking r-cran-viridislite (0.4.2-2) ... Selecting previously unselected package r-cran-scales. Preparing to unpack .../267-r-cran-scales_1.3.0-1_all.deb ... Unpacking r-cran-scales (1.3.0-1) ... Selecting previously unselected package r-cran-fansi. Preparing to unpack .../268-r-cran-fansi_1.0.5-1_amd64.deb ... Unpacking r-cran-fansi (1.0.5-1) ... Selecting previously unselected package r-cran-magrittr. Preparing to unpack .../269-r-cran-magrittr_2.0.3-1_amd64.deb ... Unpacking r-cran-magrittr (2.0.3-1) ... Selecting previously unselected package r-cran-utf8. Preparing to unpack .../270-r-cran-utf8_1.2.4-1_amd64.deb ... Unpacking r-cran-utf8 (1.2.4-1) ... Selecting previously unselected package r-cran-vctrs. Preparing to unpack .../271-r-cran-vctrs_0.6.5-1_amd64.deb ... Unpacking r-cran-vctrs (0.6.5-1) ... Selecting previously unselected package r-cran-pillar. Preparing to unpack .../272-r-cran-pillar_1.9.0+dfsg-1_all.deb ... Unpacking r-cran-pillar (1.9.0+dfsg-1) ... Selecting previously unselected package r-cran-pkgconfig. Preparing to unpack .../273-r-cran-pkgconfig_2.0.3-2_all.deb ... Unpacking r-cran-pkgconfig (2.0.3-2) ... Selecting previously unselected package r-cran-tibble. Preparing to unpack .../274-r-cran-tibble_3.2.1+dfsg-2_amd64.deb ... Unpacking r-cran-tibble (3.2.1+dfsg-2) ... Selecting previously unselected package r-cran-withr. Preparing to unpack .../275-r-cran-withr_3.0.1+dfsg-1_all.deb ... Unpacking r-cran-withr (3.0.1+dfsg-1) ... Selecting previously unselected package r-cran-ggplot2. Preparing to unpack .../276-r-cran-ggplot2_3.5.1+dfsg-1_all.deb ... Unpacking r-cran-ggplot2 (3.5.1+dfsg-1) ... Selecting previously unselected package r-cran-inline. Preparing to unpack .../277-r-cran-inline_0.3.19-2_all.deb ... Unpacking r-cran-inline (0.3.19-2) ... Selecting previously unselected package seqtk. Preparing to unpack .../278-seqtk_1.4-2_amd64.deb ... Unpacking seqtk (1.4-2) ... Selecting previously unselected package python3-pysam. Preparing to unpack .../279-python3-pysam_0.22.1+ds-2+b1_amd64.deb ... Unpacking python3-pysam (0.22.1+ds-2+b1) ... Selecting previously unselected package r-cran-pkgkitten. Preparing to unpack .../280-r-cran-pkgkitten_0.2.4-1_all.deb ... Unpacking r-cran-pkgkitten (0.2.4-1) ... Selecting previously unselected package r-cran-rcpp. Preparing to unpack .../281-r-cran-rcpp_1.0.13-1_amd64.deb ... Unpacking r-cran-rcpp (1.0.13-1) ... Selecting previously unselected package r-cran-rcppgsl. Preparing to unpack .../282-r-cran-rcppgsl_0.3.13-1+b1_amd64.deb ... Unpacking r-cran-rcppgsl (0.3.13-1+b1) ... Selecting previously unselected package mapdamage. Preparing to unpack .../283-mapdamage_2.2.2+dfsg-1_all.deb ... Unpacking mapdamage (2.2.2+dfsg-1) ... Selecting previously unselected package python3-monotonic. Preparing to unpack .../284-python3-monotonic_1.6-2_all.deb ... Unpacking python3-monotonic (1.6-2) ... Selecting previously unselected package python3-humanfriendly. Preparing to unpack .../285-python3-humanfriendly_10.0-5_all.deb ... Unpacking python3-humanfriendly (10.0-5) ... Selecting previously unselected package python3-coloredlogs. Preparing to unpack .../286-python3-coloredlogs_15.0.1-1_all.deb ... Unpacking python3-coloredlogs (15.0.1-1) ... Selecting previously unselected package python3-configargparse. Preparing to unpack .../287-python3-configargparse_1.7-1_all.deb ... Unpacking python3-configargparse (1.7-1) ... Selecting previously unselected package python3-ruamel.yaml.clib:amd64. Preparing to unpack .../288-python3-ruamel.yaml.clib_0.2.8+ds-2_amd64.deb ... Unpacking python3-ruamel.yaml.clib:amd64 (0.2.8+ds-2) ... Selecting previously unselected package python3-ruamel.yaml. Preparing to unpack .../289-python3-ruamel.yaml_0.18.6+ds-3_all.deb ... Unpacking python3-ruamel.yaml (0.18.6+ds-3) ... Selecting previously unselected package python3-setproctitle:amd64. Preparing to unpack .../290-python3-setproctitle_1.3.3-1+b3_amd64.deb ... Unpacking python3-setproctitle:amd64 (1.3.3-1+b3) ... Selecting previously unselected package phylip. Preparing to unpack .../291-phylip_1%3a3.697+dfsg-4_amd64.deb ... Unpacking phylip (1:3.697+dfsg-4) ... Selecting previously unselected package picard-tools. Preparing to unpack .../292-picard-tools_3.1.1+dfsg-1_all.deb ... Unpacking picard-tools (3.1.1+dfsg-1) ... Selecting previously unselected package radiant. Preparing to unpack .../293-radiant_2.8.1+dfsg-2_all.deb ... Unpacking radiant (2.8.1+dfsg-2) ... Selecting previously unselected package raxml. Preparing to unpack .../294-raxml_8.2.13+dfsg-1+b1_amd64.deb ... Unpacking raxml (8.2.13+dfsg-1+b1) ... Selecting previously unselected package samtools. Preparing to unpack .../295-samtools_1.20-3_amd64.deb ... Unpacking samtools (1.20-3) ... Selecting previously unselected package paleomix. Preparing to unpack .../296-paleomix_1.3.8-1_amd64.deb ... Unpacking paleomix (1.3.8-1) ... Setting up libhtscodecs2:amd64 (1.6.1-1) ... Setting up media-types (10.1.0) ... Setting up libgraphite2-3:amd64 (1.3.14-2) ... Setting up liblcms2-2:amd64 (2.14-2+b1) ... Setting up libpixman-1-0:amd64 (0.42.2-1+b1) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... Setting up libwayland-server0:amd64 (1.23.0-1) ... Setting up libpciaccess0:amd64 (0.17-3+b1) ... Setting up libslf4j-java (1.7.32-1) ... Setting up systemd-sysv (256.6-1) ... Setting up adapterremoval (2.3.3-3) ... Setting up libxau6:amd64 (1:1.0.9-1+b1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3+b1) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libxcb1:amd64 (1.17.0-2) ... Setting up libicu72:amd64 (72.1-5) ... Setting up libxcb-xfixes0:amd64 (1.17.0-2) ... Setting up liblerc4:amd64 (4.0.0+ds-4+b1) ... Setting up seqtk (1.4-2) ... Setting up libgdbm6t64:amd64 (1.24-2) ... Setting up hicolor-icon-theme (0.18-1) ... Setting up libgatk-native-bindings-java (1.0.0+dfsg-2) ... Setting up libmbedcrypto7t64:amd64 (2.28.8-1) ... Setting up java-common (0.76) ... Setting up libdatrie1:amd64 (0.2.13-3) ... Setting up libgslcblas0:amd64 (2.8+dfsg-3) ... Setting up libgdbm-compat4t64:amd64 (1.24-2) ... Setting up libxcb-render0:amd64 (1.17.0-2) ... Setting up libcbor0.10:amd64 (0.10.2-2) ... Setting up bwa (0.7.18-1) ... Setting up libglvnd0:amd64 (1.7.0-1+b1) ... Setting up libgoogle-gson-java (2.10.1-1) ... Setting up radiant (2.8.1+dfsg-2) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libmjson-java (1.4.0-3) ... Setting up libxcb-glx0:amd64 (1.17.0-2) ... Setting up unzip (6.0-28) ... Setting up libbrotli1:amd64 (1.1.0-2+b4) ... Setting up libedit2:amd64 (3.1-20240808-1) ... Setting up libsqlite3-0:amd64 (3.46.0-1) ... Setting up libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... Setting up phylip (1:3.697+dfsg-4) ... Setting up x11-common (1:7.7+23.1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libsensors-config (1:3.6.0-10) ... Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.63.0-1) ... Setting up libibumad3:amd64 (52.0-2) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up xkb-data (2.42-1) ... Setting up libxcb-shm0:amd64 (1.17.0-2) ... Setting up libibmad5:amd64 (52.0-2) ... Setting up libgomp1:amd64 (14.2.0-3) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libelf1t64:amd64 (0.191-2) ... Setting up libsnappy1v5:amd64 (1.2.1-1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up libxcb-present0:amd64 (1.17.0-2) ... Setting up libasound2-data (1.2.12-1) ... Setting up zip (3.0-14) ... Setting up librhino-java (1.7.14-2.1) ... Setting up libz3-4:amd64 (4.8.12-3.1+b2) ... Setting up libblas3:amd64 (3.12.0-3) ... 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 libasound2t64:amd64 (1.2.12-1) ... Setting up libmunge2:amd64 (0.5.15-4) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libepoxy0:amd64 (1.5.10-2) ... Setting up libnspr4:amd64 (2:4.35-1.1+b1) ... Setting up libxcb-sync1:amd64 (1.17.0-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:amd64 (0.8-13+b2) ... Setting up libncurses6:amd64 (6.5-2) ... Setting up libdbus-1-3:amd64 (1.14.10-4+b1) ... Setting up libfribidi0:amd64 (1.0.15-1) ... Setting up perl-modules-5.38 (5.38.2-5) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.44-2) ... Setting up libhwloc15:amd64 (2.11.2-1) ... Setting up libatomic1:amd64 (14.2.0-3) ... Setting up libtcl8.6:amd64 (8.6.15+dfsg-2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libpcsclite1:amd64 (2.3.0-1) ... Setting up libsensors5:amd64 (1:3.6.0-10) ... Setting up libmongodb-java (3.6.3-2) ... Setting up libncursesw6:amd64 (6.5-2) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libglapi-mesa:amd64 (24.2.4-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-3) ... Setting up libvulkan1:amd64 (1.3.290.0-1) ... Setting up libnghttp3-9:amd64 (1.4.0-1) ... Setting up libwebp7:amd64 (1.4.0-0.1) ... Setting up libxcb-dri2-0:amd64 (1.17.0-2) ... Setting up libgif7:amd64 (5.2.2-1) ... Setting up libnuma1:amd64 (2.0.18-1) ... Setting up libfreemarker-java (2.3.32-2) ... Setting up sensible-utils (0.0.24) ... Setting up ocl-icd-libopencl1:amd64 (2.3.2-1+b1) ... Setting up libxshmfence1:amd64 (1.3-1+b1) ... Setting up at-spi2-common (2.54.0-1) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libxcb-randr0:amd64 (1.17.0-2) ... Setting up dbus-session-bus-common (1.14.10-4) ... Setting up procps (2:4.0.4-6) ... Setting up libnl-3-200:amd64 (3.7.0-0.3) ... Setting up libpsm2-2 (11.2.185-2.1) ... Setting up openmpi-common (4.1.6-13.3) ... Setting up libx11-6:amd64 (2:1.8.7-1+b1) ... Setting up ncbi-vdb-data (3.0.2+dfsg-2) ... Setting up libthai-data (0.1.29-2) ... Setting up netbase (6.4) ... Setting up libngtcp2-16:amd64 (1.6.0-1) ... Setting up libcommons-math3-java (3.6.1-3) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10) ... Setting up libwayland-egl1:amd64 (1.23.0-1) ... Setting up libperl5.38t64:amd64 (5.38.2-5) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.3) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libssh2-1t64:amd64 (1.11.0-7) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libjoptsimple-java (5.0.4-4) ... Setting up dbus-system-bus-common (1.14.10-4) ... Setting up libfido2-1:amd64 (1.15.0-1) ... Setting up libgsl28:amd64 (2.8+dfsg-3) ... Setting up openssl (3.3.2-1) ... Setting up libdrm-common (2.4.123-1) ... Setting up libsnappy-jni (1.1.10.5-2) ... Setting up libxcomposite1:amd64 (1:0.4.5-1+b1) ... Setting up readline-common (8.2-5) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up bedtools (2.31.1+dfsg-2) ... Setting up dbus-bin (1.14.10-4+b1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Setting up raxml (8.2.13+dfsg-1+b1) ... Setting up libxkbcommon0:amd64 (1.6.0-1+b1) ... Setting up libwayland-client0:amd64 (1.23.0-1) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2) ... Setting up libllvm19:amd64 (1:19.1.1-1) ... Setting up libx11-xcb1:amd64 (2:1.8.7-1+b1) ... Setting up libice6:amd64 (2:1.0.10-1+b1) ... Setting up liblapack3:amd64 (3.12.0-3) ... 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 libmbedx509-1t64:amd64 (2.28.8-1) ... Setting up libgsl-dev (2.8+dfsg-3) ... Setting up libxdamage1:amd64 (1:1.1.6-1+b1) ... Setting up libopenblas0-pthread:amd64 (0.3.28+ds-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/x86_64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-x86_64-linux-gnu) in auto mode Setting up libxrender1:amd64 (1:0.9.10-1.1+b1) ... Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-13+b2) ... Setting up libcommons-logging-java (1.3.0-1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libnss3:amd64 (2:3.105-2) ... Setting up dbus-daemon (1.14.10-4+b1) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up libnl-route-3-200:amd64 (3.7.0-0.3) ... Setting up libxnvctrl0:amd64 (535.171.04-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libthai0:amd64 (0.1.29-2) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up perl (5.38.2-5) ... Setting up libglib2.0-0t64:amd64 (2.82.1-1) ... Setting up libllvm17t64:amd64 (1:17.0.6-18) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b1) ... Setting up dbus (1.14.10-4+b1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b1) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libxrandr2:amd64 (2:1.5.4-1) ... Setting up ucf (3.0043+nmu1) ... Setting up libcommons-lang3-java (3.14.0-1) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up libdrm2:amd64 (2.4.123-1) ... Setting up libopenblas0:amd64 (0.3.28+ds-2) ... Setting up libmbedtls14t64:amd64 (2.28.8-1) ... Setting up libwayland-cursor0:amd64 (1.23.0-1) ... Setting up libpam-systemd:amd64 (256.6-1) ... Setting up libharfbuzz0b:amd64 (9.0.0-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... Setting up libsnappy-java (1.1.10.5-2) ... Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b1) ... Setting up libxss1:amd64 (1:1.2.3-1+b1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libcommons-codec-java (1.16.0-1) ... Setting up libsm6:amd64 (2:1.2.3-1+b1) ... Setting up libavahi-client3:amd64 (0.8-13+b2) ... Setting up libdrm-amdgpu1:amd64 (2.4.123-1) ... Setting up libopenblas-pthread-dev:amd64 (0.3.28+ds-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/x86_64-linux-gnu/libopenblas.so (libopenblas.so-x86_64-linux-gnu) in auto mode Setting up libpaper1:amd64 (1.1.29+b1) ... Creating config file /etc/papersize with new version Setting up gtk-update-icon-cache (4.16.3+ds-1) ... Setting up libibverbs1:amd64 (52.0-2) ... Setting up fontconfig (2.15.0-1.1) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1+b1) ... Setting up libatk1.0-0t64:amd64 (2.54.0-1) ... Setting up openjdk-21-jre-headless:amd64 (21.0.5~8ea-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up libcommons-compress-java (1.25.0-1) ... Setting up libcurl4t64:amd64 (8.10.1-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Setting up ibverbs-providers:amd64 (52.0-2) ... Setting up mafft (7.505-1) ... Setting up libcommons-io-java (2.16.1-1) ... Setting up libdrm-radeon1:amd64 (2.4.123-1) ... Setting up openssh-client (1:9.9p1-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1+b1) ... Setting up libtk8.6:amd64 (8.6.15-1) ... Setting up libxcursor1:amd64 (1:1.2.2-1) ... Setting up libpango-1.0-0:amd64 (1.54.0+ds-2) ... Setting up libdrm-intel1:amd64 (2.4.123-1) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Setting up libcurl3t64-gnutls:amd64 (8.10.1-1) ... Setting up libcloudproviders0:amd64 (0.3.6-1) ... Setting up libpaper-utils (1.1.29+b1) ... Setting up libhwloc-plugins:amd64 (2.11.2-1) ... Setting up libcairo2:amd64 (1.18.2-2) ... Setting up libcolord2:amd64 (1.4.7-1+b1) ... Setting up libdconf1:amd64 (0.40.0-4+b2) ... Setting up dbus-user-session (1.14.10-4+b1) ... Setting up libopenblas-dev:amd64 (0.3.28+ds-2) ... Setting up adwaita-icon-theme (47.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libatspi2.0-0t64:amd64 (2.54.0-1) ... Setting up libxt6t64:amd64 (1:1.2.1-1.2) ... Setting up libpmix2t64:amd64 (5.0.3-2) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up libnsl2:amd64 (1.3.0-3+b2) ... Setting up libhts3t64:amd64 (1.20+ds-1) ... Setting up librdmacm1t64:amd64 (52.0-2) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libcairo-gobject2:amd64 (1.18.2-2) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-2) ... Setting up libcups2t64:amd64 (2.4.10-2) ... Setting up libhsakmt1:amd64 (5.7.0-1) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-2) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Setting up libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Setting up libfabric1:amd64 (1.17.0-3+b1) ... Setting up mesa-libgallium:amd64 (24.2.4-1) ... Setting up libngs-jni:amd64 (3.0.3+dfsg-9) ... Setting up libpython3.12-stdlib:amd64 (3.12.6-1) ... Setting up libgbm1:amd64 (24.2.4-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up python3.12 (3.12.6-1) ... Setting up libgl1-mesa-dri:amd64 (24.2.4-1) ... Setting up bcftools (1.20-2) ... Setting up dconf-service (0.40.0-4+b2) ... Setting up samtools (1.20-3) ... Setting up r-base-core (4.4.1-3) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-labeling (0.4.3-1) ... Setting up r-cran-lattice (0.22-6-1) ... Setting up r-cran-nlme (3.1.166-1) ... Setting up r-cran-farver (2.1.2-1) ... Setting up r-cran-viridislite (0.4.2-2) ... Setting up libhsa-runtime64-1:amd64 (5.7.1-3) ... Setting up libngs-java:amd64 (3.0.3+dfsg-9) ... Setting up r-cran-r6 (2.5.1-1) ... Setting up r-cran-pkgkitten (0.2.4-1) ... Setting up r-cran-magrittr (2.0.3-1) ... Setting up libhtsjdk-java (4.1.0+dfsg-2) ... Setting up libbarclay-java (5.0.0+dfsg-1) ... Setting up libpython3-stdlib:amd64 (3.12.6-1) ... Setting up r-cran-littler (0.3.20-1) ... Setting up r-cran-rcpp (1.0.13-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-cran-inline (0.3.19-2) ... Setting up r-cran-rlang (1.1.4-1) ... Setting up libglx-mesa0:amd64 (24.2.4-1) ... Setting up littler (0.3.20-1) ... Setting up libglx0:amd64 (1.7.0-1+b1) ... Setting up dconf-gsettings-backend:amd64 (0.40.0-4+b2) ... Setting up r-cran-withr (3.0.1+dfsg-1) ... Setting up libgkl-java (0.8.11+dfsg-2) ... Setting up r-cran-iterators (1.0.14-1) ... Setting up r-cran-foreach (1.5.2-1) ... Setting up r-cran-fansi (1.0.5-1) ... Setting up r-cran-mass (7.3-61-1) ... Setting up python3 (3.12.6-1) ... Setting up r-cran-glue (1.7.0-1) ... Setting up r-cran-gam (1.22-5-1) ... Setting up r-cran-cli (3.6.3-1) ... Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... Setting up bowtie2 (2.5.4-1) ... Setting up python3-monotonic (1.6-2) ... Setting up r-cran-pkgconfig (2.0.3-2) ... Setting up libpicard-java (3.1.1+dfsg-1) ... Setting up r-cran-utf8 (1.2.4-1) ... Setting up r-cran-colorspace (2.1-1+dfsg-1) ... Setting up libgl1:amd64 (1.7.0-1+b1) ... Setting up libamdhip64-5 (5.7.1-5) ... Setting up python3-humanfriendly (10.0-5) ... Setting up r-cran-rcolorbrewer (1.1-3-1) ... Setting up r-cran-isoband (0.2.7-1) ... Setting up r-cran-gtable (0.3.5+dfsg-1) ... Setting up python3-setproctitle:amd64 (1.3.3-1+b3) ... Setting up r-cran-matrix (1.7-0-3) ... Setting up r-cran-mgcv (1.9-1-1) ... Setting up python3-coloredlogs (15.0.1-1) ... Setting up r-cran-rcppgsl (0.3.13-1+b1) ... Setting up r-cran-vctrs (0.6.5-1) ... Setting up libgtk-3-common (3.24.43-4) ... Setting up r-cran-pillar (1.9.0+dfsg-1) ... Setting up python3-configargparse (1.7-1) ... Setting up libucx0:amd64 (1.17.0+ds-3) ... Setting up python3-pysam (0.22.1+ds-2+b1) ... Setting up python3-ruamel.yaml.clib:amd64 (0.2.8+ds-2) ... Setting up r-cran-munsell (0.5.1-1) ... Setting up r-cran-tibble (3.2.1+dfsg-2) ... Setting up libgtk-3-0t64:amd64 (3.24.43-4) ... Setting up r-cran-scales (1.3.0-1) ... Setting up libopenmpi3t64:amd64 (4.1.6-13.3) ... Setting up python3-ruamel.yaml (0.18.6+ds-3) ... Setting up openmpi-bin (4.1.6-13.3) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ... Setting up mapdamage (2.2.2+dfsg-1) ... Setting up examl (3.0.22-5+b1) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for systemd (256.6-1) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-21-jre:amd64 (21.0.5~8ea-1) ... Setting up default-jre-headless (2:1.21-76) ... Setting up default-jre (2:1.21-76) ... Setting up picard-tools (3.1.1+dfsg-1) ... Setting up paleomix (1.3.8-1) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. 0m47.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-y', 'install', 'paleomix'] 0m47.2s INFO: Running scripts post_install 0m47.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_install_exceptions'] 0m47.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_install_exceptions'] 0m47.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 0m48.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 0m48.4s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpzth9mqlr to sid 0m48.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m48.4s INFO: Running scripts pre_distupgrade 0m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_exceptions'] 0m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_exceptions'] 0m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m48.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m48.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m48.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m48.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'update'] 0m52.5s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9984 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7332 kB] Fetched 17.5 MB in 3s (5319 kB/s) Reading package lists... 0m52.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'update'] 0m52.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-yf', 'dist-upgrade'] 1m0.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: adwaita-icon-theme bsdutils gcc-14-base gpgv hostname libatomic1 libaudit-common libaudit1 libblkid1 libgcc-s1 libgfortran5 libgomp1 libhsakmt1 libmount1 libpam-systemd libpython3.12-minimal libpython3.12-stdlib libsmartcols1 libsqlite3-0 libstdc++6 libsystemd-shared libsystemd0 libudev1 libuuid1 login mount paleomix python3-humanfriendly python3.12 python3.12-minimal systemd systemd-sysv tzdata util-linux 34 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 19.0 MB of archives. After this operation, 41.0 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-9 [105 kB] Get:2 http://deb.debian.org/debian sid/main amd64 hostname amd64 3.24 [11.0 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-9 [35.6 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-9 [168 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-9 [199 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-9 [139 kB] Get:7 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-9 [1216 kB] Get:8 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-9 [154 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.1-1 [12.3 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.1-1 [54.5 kB] Get:11 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-9 [81.4 kB] Get:12 http://deb.debian.org/debian sid/main amd64 systemd-sysv amd64 256.7-1 [58.3 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libpam-systemd amd64 256.7-1 [279 kB] Get:14 http://deb.debian.org/debian sid/main amd64 systemd amd64 256.7-1 [3496 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libsystemd-shared amd64 256.7-1 [2069 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 256.7-1 [382 kB] Get:17 http://deb.debian.org/debian sid/main amd64 python3.12 amd64 3.12.7-1 [671 kB] Get:18 http://deb.debian.org/debian sid/main amd64 python3.12-minimal amd64 3.12.7-1 [2162 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libpython3.12-stdlib amd64 3.12.7-1 [1965 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libpython3.12-minimal amd64 3.12.7-1 [814 kB] Get:21 http://deb.debian.org/debian sid/main amd64 tzdata all 2024b-3 [255 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:23 http://deb.debian.org/debian sid/main amd64 gpgv amd64 2.2.44-1 [218 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-6 [9284 B] Get:25 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-6 [46.7 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-6 [715 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-6 [137 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-6 [836 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-6 [72.8 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 256.7-1 [145 kB] Get:31 http://deb.debian.org/debian sid/main amd64 adwaita-icon-theme all 47.0-2 [463 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libhsakmt1 amd64 6.1.2+ds-1 [59.8 kB] Get:33 http://deb.debian.org/debian sid/main amd64 paleomix amd64 1.3.8-2 [984 kB] Get:34 http://deb.debian.org/debian sid/main amd64 python3-humanfriendly all 10.0-6 [85.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 19.0 MB in 0s (86.1 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 ... 23937 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.40.2-9_amd64.deb ... Unpacking bsdutils (1:2.40.2-9) over (1:2.40.2-8) ... Setting up bsdutils (1:2.40.2-9) ... (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 ... 23937 files and directories currently installed.) Preparing to unpack .../hostname_3.24_amd64.deb ... Unpacking hostname (3.24) over (3.23+nmu2) ... Setting up hostname (3.24) ... (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 ... 23937 files and directories currently installed.) Preparing to unpack .../libuuid1_2.40.2-9_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-9) over (2.40.2-8) ... Setting up libuuid1:amd64 (2.40.2-9) ... (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 ... 23937 files and directories currently installed.) Preparing to unpack .../libblkid1_2.40.2-9_amd64.deb ... Unpacking libblkid1:amd64 (2.40.2-9) over (2.40.2-8) ... Setting up libblkid1:amd64 (2.40.2-9) ... (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 ... 23937 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.2-9_amd64.deb ... Unpacking libmount1:amd64 (2.40.2-9) over (2.40.2-8) ... Setting up libmount1:amd64 (2.40.2-9) ... (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 ... 23937 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-9_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-9) over (2.40.2-8) ... Setting up libsmartcols1:amd64 (2.40.2-9) ... (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 ... 23937 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-9_amd64.deb ... Unpacking util-linux (2.40.2-9) over (2.40.2-8) ... Setting up util-linux (2.40.2-9) ... (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 ... 23937 files and directories currently installed.) Preparing to unpack .../mount_2.40.2-9_amd64.deb ... Unpacking mount (2.40.2-9) over (2.40.2-8) ... Preparing to unpack .../libaudit-common_1%3a4.0.1-1_all.deb ... Unpacking libaudit-common (1:4.0.1-1) over (1:3.1.2-4) ... Setting up libaudit-common (1:4.0.1-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 23937 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a4.0.1-1_amd64.deb ... Unpacking libaudit1:amd64 (1:4.0.1-1) over (1:3.1.2-4+b1) ... Setting up libaudit1:amd64 (1:4.0.1-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 23936 files and directories currently installed.) Preparing to unpack .../0-login_1%3a4.16.0-2+really2.40.2-9_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.2-9) over (1:4.16.0-2+really2.40.2-8) ... Preparing to unpack .../1-systemd-sysv_256.7-1_amd64.deb ... Unpacking systemd-sysv (256.7-1) over (256.6-1) ... Preparing to unpack .../2-libpam-systemd_256.7-1_amd64.deb ... Unpacking libpam-systemd:amd64 (256.7-1) over (256.6-1) ... Preparing to unpack .../3-systemd_256.7-1_amd64.deb ... Unpacking systemd (256.7-1) over (256.6-1) ... Preparing to unpack .../4-libsystemd-shared_256.7-1_amd64.deb ... Unpacking libsystemd-shared:amd64 (256.7-1) over (256.6-1) ... Preparing to unpack .../5-libsystemd0_256.7-1_amd64.deb ... Unpacking libsystemd0:amd64 (256.7-1) over (256.6-1) ... Setting up libsystemd0:amd64 (256.7-1) ... (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 ... 23936 files and directories currently installed.) Preparing to unpack .../0-python3.12_3.12.7-1_amd64.deb ... Unpacking python3.12 (3.12.7-1) over (3.12.6-1) ... Preparing to unpack .../1-python3.12-minimal_3.12.7-1_amd64.deb ... Unpacking python3.12-minimal (3.12.7-1) over (3.12.6-1) ... Preparing to unpack .../2-libpython3.12-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-1) over (3.12.6-1) ... Preparing to unpack .../3-libpython3.12-minimal_3.12.7-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-1) over (3.12.6-1) ... Preparing to unpack .../4-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) over (2024a-4) ... Preparing to unpack .../5-libsqlite3-0_3.46.1-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.46.1-1) over (3.46.0-1) ... Preparing to unpack .../6-gpgv_2.2.44-1_amd64.deb ... Unpacking gpgv (2.2.44-1) over (2.2.43-8+b1) ... Setting up gpgv (2.2.44-1) ... (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 ... 23923 files and directories currently installed.) Preparing to unpack .../libatomic1_14.2.0-6_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-6) over (14.2.0-3) ... Preparing to unpack .../gcc-14-base_14.2.0-6_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-6) over (14.2.0-3) ... Setting up gcc-14-base:amd64 (14.2.0-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 23923 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-6_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-6) over (14.2.0-3) ... Setting up libstdc++6:amd64 (14.2.0-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 23923 files and directories currently installed.) Preparing to unpack .../libgomp1_14.2.0-6_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-6) over (14.2.0-3) ... Preparing to unpack .../libgfortran5_14.2.0-6_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-6) over (14.2.0-3) ... Preparing to unpack .../libgcc-s1_14.2.0-6_amd64.deb ... Unpacking libgcc-s1:amd64 (14.2.0-6) over (14.2.0-3) ... Setting up libgcc-s1:amd64 (14.2.0-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 23923 files and directories currently installed.) Preparing to unpack .../libudev1_256.7-1_amd64.deb ... Unpacking libudev1:amd64 (256.7-1) over (256.6-1) ... Setting up libudev1:amd64 (256.7-1) ... (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 ... 23923 files and directories currently installed.) Preparing to unpack .../adwaita-icon-theme_47.0-2_all.deb ... Unpacking adwaita-icon-theme (47.0-2) over (47.0-1) ... Preparing to unpack .../libhsakmt1_6.1.2+ds-1_amd64.deb ... Unpacking libhsakmt1:amd64 (6.1.2+ds-1) over (5.7.0-1) ... Preparing to unpack .../paleomix_1.3.8-2_amd64.deb ... Unpacking paleomix (1.3.8-2) over (1.3.8-1) ... Preparing to unpack .../python3-humanfriendly_10.0-6_all.deb ... Unpacking python3-humanfriendly (10.0-6) over (10.0-5) ... Setting up libsqlite3-0:amd64 (3.46.1-1) ... Setting up libpython3.12-minimal:amd64 (3.12.7-1) ... Setting up libgomp1:amd64 (14.2.0-6) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Oct 9 21:34:50 UTC 2024. Universal Time is now: Wed Oct 9 21:34:50 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up python3-humanfriendly (10.0-6) ... Setting up adwaita-icon-theme (47.0-2) ... Setting up libatomic1:amd64 (14.2.0-6) ... Setting up libsystemd-shared:amd64 (256.7-1) ... Setting up libgfortran5:amd64 (14.2.0-6) ... Setting up mount (2.40.2-9) ... Setting up paleomix (1.3.8-2) ... Setting up libhsakmt1:amd64 (6.1.2+ds-1) ... Setting up login (1:4.16.0-2+really2.40.2-9) ... Setting up python3.12-minimal (3.12.7-1) ... Setting up libpython3.12-stdlib:amd64 (3.12.7-1) ... Setting up python3.12 (3.12.7-1) ... Setting up systemd (256.7-1) ... [ESC][0;1;39m/usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring.[ESC][0m [ESC][0;1;31m"/home" already exists and is not a directory.[ESC][0m Setting up systemd-sysv (256.7-1) ... Setting up libpam-systemd:amd64 (256.7-1) ... Processing triggers for dbus (1.14.10-4+b1) ... Processing triggers for shared-mime-info (2.4-5+b1) ... Processing triggers for libc-bin (2.40-3) ... 1m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-yf', 'dist-upgrade'] 1m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m0.9s DUMP: e2c7c90454d1a68aef693f722a36a1d8 - 1m0.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m0.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'show', '--no-all-versions', 'paleomix'] 1m1.1s DUMP: Package: paleomix Version: 1.3.8-2 Installed-Size: 2006 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-coloredlogs, python3-configargparse, python3-pysam, python3-ruamel.yaml, python3-setproctitle, python3:any, adapterremoval, bedtools, bowtie2, bwa, bcftools, examl, mafft, mapdamage, phylip, picard-tools, r-base-core, radiant, raxml, samtools Description-en: pipelines and tools for the processing of ancient and modern HTS data The PALEOMIX pipelines are a set of pipelines and tools designed to aid the rapid processing of High-Throughput Sequencing (HTS) data: The BAM pipeline processes de-multiplexed reads from one or more samples, through sequence processing and alignment, to generate BAM alignment files useful in downstream analyses; the Phylogenetic pipeline carries out genotyping and phylogenetic inference on BAM alignment files, either produced using the BAM pipeline or generated elsewhere; and the Zonkey pipeline carries out a suite of analyses on low coverage equine alignments, in order to detect the presence of F1-hybrids in archaeological assemblages. In addition, PALEOMIX aids in metagenomic analysis of the extracts. . The pipelines have been designed with ancient DNA (aDNA) in mind, and includes several features especially useful for the analyses of ancient samples, but can all be for the processing of modern samples, in order to ensure consistent data processing. Description-md5: 7cb3c4aa709e51b480a41a73961d7253 Homepage: https://geogenetics.ku.dk/publications/paleomix Section: science Priority: optional Filename: pool/main/p/paleomix/paleomix_1.3.8-2_amd64.deb Size: 984108 MD5sum: 002d92f28755caf1c12004da66a7964a SHA256: 56fcce16061450d75d95b3db3d8169aee8f8e810f5ac2a725ea57c7dce44864e 1m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'show', '--no-all-versions', 'paleomix'] 1m1.1s INFO: apt-cache knows about the following packages: paleomix 1m1.1s INFO: Running scripts pre_install 1m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_database-server'] 1m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_database-server'] 1m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_exceptions'] 1m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_exceptions'] 1m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_extras'] 1m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_extras'] 1m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture'] 1m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture'] 1m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy'] 1m1.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy'] 1m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy', 'paleomix'] 1m1.2s DUMP: paleomix: Installed: 1.3.8-2 Candidate: 1.3.8-2 Version table: *** 1.3.8-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy', 'paleomix'] 1m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-y', 'install', 'paleomix'] 1m1.8s DUMP: Reading package lists... Building dependency tree... Reading state information... paleomix is already the newest version (1.3.8-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-y', 'install', 'paleomix'] 1m1.8s INFO: Running scripts post_install 1m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_install_exceptions'] 1m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_install_exceptions'] 1m1.8s INFO: Running scripts post_distupgrade 1m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_exceptions'] 1m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_exceptions'] 1m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_zz_backports'] 1m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_distupgrade_zz_backports'] 1m1.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m3.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m3.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m4.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m4.4s INFO: Running scripts pre_install 1m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_database-server'] 1m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_database-server'] 1m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_exceptions'] 1m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_exceptions'] 1m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_extras'] 1m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_extras'] 1m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture'] 1m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture'] 1m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy'] 1m4.6s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy'] 1m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy', 'paleomix'] 1m4.6s DUMP: paleomix: Installed: 1.3.8-2 Candidate: 1.3.8-2 Version table: *** 1.3.8-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-cache', 'policy', 'paleomix'] 1m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-y', 'install', 'paleomix=1.3.8-2'] 1m5.1s DUMP: Reading package lists... Building dependency tree... Reading state information... paleomix is already the newest version (1.3.8-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', '-y', 'install', 'paleomix=1.3.8-2'] 1m5.1s INFO: Running scripts post_install 1m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_install_exceptions'] 1m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_install_exceptions'] 1m5.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m6.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m6.3s INFO: /bin converted to /usr/bin by /usr merge 1m7.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', '-ac', '--ignore-obsolete'] 1m14.7s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', '-ac', '--ignore-obsolete'] 1m14.7s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m14.7s DUMP: 0.15.6 1m14.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m14.7s INFO: Running adequate version 0.15.6 now. 1m14.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'paleomix'] 1m14.9s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'paleomix'] 1m14.9s INFO: Running scripts pre_remove 1m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m29.1s DUMP: UNOWNED SYMLINK /usr/lib/x86_64-linux-gnu/libmpi_usempi_ignore_tkr-gfortranso.40 -> libmpi_usempi_ignore_tkr-gfortran.so.40.30.0 1m29.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m29.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_exceptions'] 1m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/pre_remove_exceptions'] 1m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m29.5s DUMP: install ok installed adapterremoval adapterremoval 2.3.3-3 install ok installed adduser adduser 3.137 install ok installed adwaita-icon-theme adwaita-icon-theme 47.0-2 install ok installed apt apt 2.9.8 install ok installed at-spi2-common at-spi2-common 2.54.0-1 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1+b1 install ok installed bcftools bcftools 1.20-2 install ok installed bedtools bedtools 2.31.1+dfsg-2 install ok installed bowtie2 bowtie2 2.5.4-1 install ok installed bsdutils bsdutils 1:2.40.2-9 install ok installed bwa bwa 0.7.18-1 install ok installed ca-certificates ca-certificates 20240203 install ok installed ca-certificates-java ca-certificates-java 20240118 install ok installed coreutils coreutils 9.4-3.1 install ok installed dash dash 0.5.12-9 install ok installed dbus dbus 1.14.10-4+b1 install ok installed dbus-bin dbus-bin 1.14.10-4+b1 install ok installed dbus-daemon dbus-daemon 1.14.10-4+b1 install ok installed dbus-session-bus-common dbus-session-bus-common 1.14.10-4 install ok installed dbus-system-bus-common dbus-system-bus-common 1.14.10-4 install ok installed dbus-user-session dbus-user-session 1.14.10-4+b1 install ok installed dconf-gsettings-backend:amd64 dconf-gsettings-backend 0.40.0-4+b2 install ok installed dconf-service dconf-service 0.40.0-4+b2 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed default-jre default-jre 2:1.21-76 install ok installed default-jre-headless default-jre-headless 2:1.21-76 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed examl examl 3.0.22-5+b1 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig fontconfig 2.15.0-1.1 install ok installed fontconfig-config fontconfig-config 2.15.0-1.1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-6 install ok installed gpgv gpgv 2.2.44-1 install ok installed grep grep 3.11-4 install ok installed gtk-update-icon-cache gtk-update-icon-cache 4.16.3+ds-1 install ok installed gzip gzip 1.12-1.1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.18-1 install ok installed hostname hostname 3.24 install ok installed ibverbs-providers:amd64 ibverbs-providers 52.0-2 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed java-common java-common 0.76 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libamd-comgr2:amd64 libamd-comgr2 6.0+git20231212.4510c28+dfsg-3+b1 install ok installed libamdhip64-5 libamdhip64-5 5.7.1-5 install ok installed libapache-pom-java libapache-pom-java 29-2 install ok installed libapparmor1:amd64 libapparmor1 3.1.7-1+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libasound2-data libasound2-data 1.2.12-1 install ok installed libasound2t64:amd64 libasound2t64 1.2.12-1 install ok installed libatk-bridge2.0-0t64:amd64 libatk-bridge2.0-0t64 2.54.0-1 install ok installed libatk1.0-0t64:amd64 libatk1.0-0t64 2.54.0-1 install ok installed libatomic1:amd64 libatomic1 14.2.0-6 install ok installed libatspi2.0-0t64:amd64 libatspi2.0-0t64 2.54.0-1 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-1 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-13+b2 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-13+b2 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-13+b2 install ok installed libbarclay-java libbarclay-java 5.0.0+dfsg-1 install ok installed libblas3:amd64 libblas3 3.12.0-3 install ok installed libblkid1:amd64 libblkid1 2.40.2-9 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b4 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-3 install ok installed libc6:amd64 libc6 2.40-3 install ok installed libcairo-gobject2:amd64 libcairo-gobject2 1.18.2-2 install ok installed libcairo2:amd64 libcairo2 1.18.2-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcbor0.10:amd64 libcbor0.10 0.10.2-2 install ok installed libcloudproviders0:amd64 libcloudproviders0 0.3.6-1 install ok installed libcolord2:amd64 libcolord2 1.4.7-1+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcommons-codec-java libcommons-codec-java 1.16.0-1 install ok installed libcommons-compress-java libcommons-compress-java 1.25.0-1 install ok installed libcommons-io-java libcommons-io-java 2.16.1-1 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang3-java libcommons-lang3-java 3.14.0-1 install ok installed libcommons-logging-java libcommons-logging-java 1.3.0-1 install ok installed libcommons-math3-java libcommons-math3-java 3.6.1-3 install ok installed libcommons-parent-java libcommons-parent-java 56-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcups2t64:amd64 libcups2t64 2.4.10-2 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.10.1-1 install ok installed libcurl4t64:amd64 libcurl4t64 8.10.1-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-3 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.10-4+b1 install ok installed libdconf1:amd64 libdconf1 0.40.0-4+b2 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libdeflate0:amd64 libdeflate0 1.22-1 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.123-1 install ok installed libdrm-common libdrm-common 2.4.123-1 install ok installed libdrm-intel1:amd64 libdrm-intel1 2.4.123-1 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.123-1 install ok installed libdrm2:amd64 libdrm2 2.4.123-1 install ok installed libedit2:amd64 libedit2 3.1-20240808-1 install ok installed libelf1t64:amd64 libelf1t64 0.191-2 install ok installed libepoxy0:amd64 libepoxy0 1.5.10-2 install ok installed libevent-core-2.1-7t64:amd64 libevent-core-2.1-7t64 2.1.12-stable-10 install ok installed libevent-pthreads-2.1-7t64:amd64 libevent-pthreads-2.1-7t64 2.1.12-stable-10 install ok installed libexpat1:amd64 libexpat1 2.6.3-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libfabric1:amd64 libfabric1 1.17.0-3+b1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfido2-1:amd64 libfido2-1 1.15.0-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1.1 install ok installed libfreemarker-java libfreemarker-java 2.3.32-2 install ok installed libfreetype6:amd64 libfreetype6 2.13.3+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.15-1 install ok installed libgatk-native-bindings-java libgatk-native-bindings-java 1.0.0+dfsg-2 install ok installed libgbm1:amd64 libgbm1 24.2.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.24-2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.24-2 install ok installed libgdk-pixbuf-2.0-0:amd64 libgdk-pixbuf-2.0-0 2.42.12+dfsg-1 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.42.12+dfsg-1 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-6 install ok installed libgif7:amd64 libgif7 5.2.2-1 install ok installed libgkl-java libgkl-java 0.8.11+dfsg-2 install ok installed libgl1:amd64 libgl1 1.7.0-1+b1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 24.2.4-1 install ok installed libglapi-mesa:amd64 libglapi-mesa 24.2.4-1 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.82.1-1 install ok installed libglvnd0:amd64 libglvnd0 1.7.0-1+b1 install ok installed libglx-mesa0:amd64 libglx-mesa0 24.2.4-1 install ok installed libglx0:amd64 libglx0 1.7.0-1+b1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-6 install ok installed libgoogle-gson-java libgoogle-gson-java 2.10.1-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2 install ok installed libgsl-dev libgsl-dev 2.8+dfsg-3 install ok installed libgsl28:amd64 libgsl28 2.8+dfsg-3 install ok installed libgslcblas0:amd64 libgslcblas0 2.8+dfsg-3 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 install ok installed libgtk-3-0t64:amd64 libgtk-3-0t64 3.24.43-4 install ok installed libgtk-3-common libgtk-3-common 3.24.43-4 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 9.0.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libhsa-runtime64-1:amd64 libhsa-runtime64-1 5.7.1-3 install ok installed libhsakmt1:amd64 libhsakmt1 6.1.2+ds-1 install ok installed libhts3t64:amd64 libhts3t64 1.20+ds-1 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.1-1 install ok installed libhtsjdk-java libhtsjdk-java 4.1.0+dfsg-2 install ok installed libhttpclient-java libhttpclient-java 4.5.14-1 install ok installed libhttpcore-java libhttpcore-java 4.4.16-1 install ok installed libhwloc-plugins:amd64 libhwloc-plugins 2.11.2-1 install ok installed libhwloc15:amd64 libhwloc15 2.11.2-1 install ok installed libibmad5:amd64 libibmad5 52.0-2 install ok installed libibumad3:amd64 libibumad3 52.0-2 install ok installed libibverbs1:amd64 libibverbs1 52.0-2 install ok installed libice6:amd64 libice6 2:1.0.10-1+b1 install ok installed libicu72:amd64 libicu72 72.1-5 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b1 install ok installed libjoptsimple-java libjoptsimple-java 5.0.4-4 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-3 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-3 install ok installed liblapack3:amd64 liblapack3 3.12.0-3 install ok installed liblcms2-2:amd64 liblcms2-2 2.14-2+b1 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-3 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-4+b1 install ok installed liblightcouch-java liblightcouch-java 0.2.0-1 install ok installed libllvm17t64:amd64 libllvm17t64 1:17.0.6-18 install ok installed libllvm19:amd64 libllvm19 1:19.1.1-1 install ok installed liblog4j2-java liblog4j2-java 2.19.0-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmbedcrypto7t64:amd64 libmbedcrypto7t64 2.28.8-1 install ok installed libmbedtls14t64:amd64 libmbedtls14t64 2.28.8-1 install ok installed libmbedx509-1t64:amd64 libmbedx509-1t64 2.28.8-1 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmjson-java libmjson-java 1.4.0-3 install ok installed libmongodb-java libmongodb-java 3.6.3-2 install ok installed libmount1:amd64 libmount1 2.40.2-9 install ok installed libmunge2:amd64 libmunge2 0.5.15-4 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.0.3+dfsg-9 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.0.2+dfsg-2+b1 install ok installed libncurses6:amd64 libncurses6 6.5-2 install ok installed libncursesw6:amd64 libncursesw6 6.5-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.63.0-1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.4.0-1 install ok installed libngs-java:amd64 libngs-java 3.0.3+dfsg-9 install ok installed libngs-jni:amd64 libngs-jni 3.0.3+dfsg-9 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.6.0-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.6.0-1 install ok installed libnl-3-200:amd64 libnl-3-200 3.7.0-0.3 install ok installed libnl-route-3-200:amd64 libnl-route-3-200 3.7.0-0.3 install ok installed libnsl2:amd64 libnsl2 1.3.0-3+b2 install ok installed libnspr4:amd64 libnspr4 2:4.35-1.1+b1 install ok installed libnss3:amd64 libnss3 2:3.105-2 install ok installed libnuma1:amd64 libnuma1 2.0.18-1 install ok installed libopenblas-dev:amd64 libopenblas-dev 0.3.28+ds-2 install ok installed libopenblas-pthread-dev:amd64 libopenblas-pthread-dev 0.3.28+ds-2 install ok installed libopenblas0:amd64 libopenblas0 0.3.28+ds-2 install ok installed libopenblas0-pthread:amd64 libopenblas0-pthread 0.3.28+ds-2 install ok installed libopenmpi3t64:amd64 libopenmpi3t64 4.1.6-13.3 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam-systemd:amd64 libpam-systemd 256.7-1 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.54.0+ds-2 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.54.0+ds-2 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.54.0+ds-2 install ok installed libpaper-utils libpaper-utils 1.1.29+b1 install ok installed libpaper1:amd64 libpaper1 1.1.29+b1 install ok installed libpciaccess0:amd64 libpciaccess0 0.17-3+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libpcsclite1:amd64 libpcsclite1 2.3.0-1 install ok installed libperl5.38t64:amd64 libperl5.38t64 5.38.2-5 install ok installed libpicard-java libpicard-java 3.1.1+dfsg-1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1+b1 install ok installed libpmix2t64:amd64 libpmix2t64 5.0.3-2 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.44-2 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-6 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1 install ok installed libpsm-infinipath1 libpsm-infinipath1 3.3+20.604758e7-6.3 install ok installed libpsm2-2 libpsm2-2 11.2.185-2.1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.12.6-1 install ok installed libpython3.12-minimal:amd64 libpython3.12-minimal 3.12.7-1 install ok installed libpython3.12-stdlib:amd64 libpython3.12-stdlib 3.12.7-1 install ok installed librdmacm1t64:amd64 librdmacm1t64 52.0-2 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-5 install ok installed librhino-java librhino-java 1.7.14-2.1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b4 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-8 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-8 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsensors-config libsensors-config 1:3.6.0-10 install ok installed libsensors5:amd64 libsensors5 1:3.6.0-10 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.4.0-0.1 install ok installed libslf4j-java libslf4j-java 1.7.32-1 install ok installed libsm6:amd64 libsm6 2:1.2.3-1+b1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-9 install ok installed libsnappy-java libsnappy-java 1.1.10.5-2 install ok installed libsnappy-jni libsnappy-jni 1.1.10.5-2 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.2.1-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-1 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.0-7 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-1 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-6 install ok installed libsystemd-shared:amd64 libsystemd-shared 256.7-1 install ok installed libsystemd0:amd64 libsystemd0 256.7-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.15+dfsg-2 install ok installed libthai-data libthai-data 0.1.29-2 install ok installed libthai0:amd64 libthai0 0.1.29-2 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3 install ok installed libtk8.6:amd64 libtk8.6 8.6.15-1 install ok installed libucx0:amd64 libucx0 1.17.0+ds-3 install ok installed libudev1:amd64 libudev1 256.7-1 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-9 install ok installed libvulkan1:amd64 libvulkan1 1.3.290.0-1 install ok installed libwayland-client0:amd64 libwayland-client0 1.23.0-1 install ok installed libwayland-cursor0:amd64 libwayland-cursor0 1.23.0-1 install ok installed libwayland-egl1:amd64 libwayland-egl1 1.23.0-1 install ok installed libwayland-server0:amd64 libwayland-server0 1.23.0-1 install ok installed libwebp7:amd64 libwebp7 1.4.0-0.1 install ok installed libx11-6:amd64 libx11-6 2:1.8.7-1+b1 install ok installed libx11-data libx11-data 2:1.8.7-1 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.8.7-1+b1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1+b1 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.17.0-2 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.17.0-2 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.17.0-2 install ok installed libxcb-present0:amd64 libxcb-present0 1.17.0-2 install ok installed libxcb-randr0:amd64 libxcb-randr0 1.17.0-2 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.17.0-2 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.17.0-2 install ok installed libxcb1:amd64 libxcb1 1.17.0-2 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.5-1+b1 install ok installed libxcursor1:amd64 libxcursor1 1:1.2.2-1 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.6-1+b1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3+b1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-2+b1 install ok installed libxft2:amd64 libxft2 2.3.6-1+b1 install ok installed libxi6:amd64 libxi6 2:1.8.2-1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-3+b1 install ok installed libxkbcommon0:amd64 libxkbcommon0 1.6.0-1+b1 install ok installed libxml2:amd64 libxml2 2.12.7+dfsg+really2.9.14-0.1 install ok installed libxnvctrl0:amd64 libxnvctrl0 535.171.04-1 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.4-1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b1 install ok installed libxshmfence1:amd64 libxshmfence1 1.3-1+b1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b1 install ok installed libxt6t64:amd64 libxt6t64 1:1.2.1-1.2 install ok installed libxtst6:amd64 libxtst6 2:1.2.3-1.1+b1 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-1+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libz3-4:amd64 libz3-4 4.8.12-3.1+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed littler littler 0.3.20-1 install ok installed login login 1:4.16.0-2+really2.40.2-9 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed mafft mafft 7.505-1 install ok installed mapdamage mapdamage 2.2.2+dfsg-1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed media-types media-types 10.1.0 install ok installed mesa-libgallium:amd64 mesa-libgallium 24.2.4-1 install ok installed mount mount 2.40.2-9 install ok installed ncbi-vdb-data ncbi-vdb-data 3.0.2+dfsg-2 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed netbase netbase 6.4 install ok installed ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.3.2-1+b1 install ok installed openjdk-21-jre:amd64 openjdk-21-jre 21.0.5~8ea-1 install ok installed openjdk-21-jre-headless:amd64 openjdk-21-jre-headless 21.0.5~8ea-1 install ok installed openmpi-bin openmpi-bin 4.1.6-13.3 install ok installed openmpi-common openmpi-common 4.1.6-13.3 install ok installed openssh-client openssh-client 1:9.9p1-1 install ok installed openssl openssl 3.3.2-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-1 install ok installed paleomix paleomix 1.3.8-2 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl perl 5.38.2-5 install ok installed perl-base perl-base 5.38.2-5 install ok installed perl-modules-5.38 perl-modules-5.38 5.38.2-5 install ok installed phylip phylip 1:3.697+dfsg-4 install ok installed picard-tools picard-tools 3.1.1+dfsg-1 install ok installed procps procps 2:4.0.4-6 install ok installed python3 python3 3.12.6-1 install ok installed python3-coloredlogs python3-coloredlogs 15.0.1-1 install ok installed python3-configargparse python3-configargparse 1.7-1 install ok installed python3-humanfriendly python3-humanfriendly 10.0-6 install ok installed python3-minimal python3-minimal 3.12.6-1 install ok installed python3-monotonic python3-monotonic 1.6-2 install ok installed python3-pysam python3-pysam 0.22.1+ds-2+b1 install ok installed python3-ruamel.yaml python3-ruamel.yaml 0.18.6+ds-3 install ok installed python3-ruamel.yaml.clib:amd64 python3-ruamel.yaml.clib 0.2.8+ds-2 install ok installed python3-setproctitle:amd64 python3-setproctitle 1.3.3-1+b3 install ok installed python3.12 python3.12 3.12.7-1 install ok installed python3.12-minimal python3.12-minimal 3.12.7-1 install ok installed r-base-core r-base-core 4.4.1-3 install ok installed r-cran-cli r-cran-cli 3.6.3-1 install ok installed r-cran-codetools r-cran-codetools 0.2-20-1 install ok installed r-cran-colorspace r-cran-colorspace 2.1-1+dfsg-1 install ok installed r-cran-fansi r-cran-fansi 1.0.5-1 install ok installed r-cran-farver r-cran-farver 2.1.2-1 install ok installed r-cran-foreach r-cran-foreach 1.5.2-1 install ok installed r-cran-gam r-cran-gam 1.22-5-1 install ok installed r-cran-ggplot2 r-cran-ggplot2 3.5.1+dfsg-1 install ok installed r-cran-glue r-cran-glue 1.7.0-1 install ok installed r-cran-gtable r-cran-gtable 0.3.5+dfsg-1 install ok installed r-cran-inline r-cran-inline 0.3.19-2 install ok installed r-cran-isoband r-cran-isoband 0.2.7-1 install ok installed r-cran-iterators r-cran-iterators 1.0.14-1 install ok installed r-cran-labeling r-cran-labeling 0.4.3-1 install ok installed r-cran-lattice r-cran-lattice 0.22-6-1 install ok installed r-cran-lifecycle r-cran-lifecycle 1.0.4+dfsg-1 install ok installed r-cran-littler r-cran-littler 0.3.20-1 install ok installed r-cran-magrittr r-cran-magrittr 2.0.3-1 install ok installed r-cran-mass r-cran-mass 7.3-61-1 install ok installed r-cran-matrix r-cran-matrix 1.7-0-3 install ok installed r-cran-mgcv r-cran-mgcv 1.9-1-1 install ok installed r-cran-munsell r-cran-munsell 0.5.1-1 install ok installed r-cran-nlme r-cran-nlme 3.1.166-1 install ok installed r-cran-pillar r-cran-pillar 1.9.0+dfsg-1 install ok installed r-cran-pkgconfig r-cran-pkgconfig 2.0.3-2 install ok installed r-cran-pkgkitten r-cran-pkgkitten 0.2.4-1 install ok installed r-cran-r6 r-cran-r6 2.5.1-1 install ok installed r-cran-rcolorbrewer r-cran-rcolorbrewer 1.1-3-1 install ok installed r-cran-rcpp r-cran-rcpp 1.0.13-1 install ok installed r-cran-rcppgsl r-cran-rcppgsl 0.3.13-1+b1 install ok installed r-cran-rlang r-cran-rlang 1.1.4-1 install ok installed r-cran-scales r-cran-scales 1.3.0-1 install ok installed r-cran-tibble r-cran-tibble 3.2.1+dfsg-2 install ok installed r-cran-utf8 r-cran-utf8 1.2.4-1 install ok installed r-cran-vctrs r-cran-vctrs 0.6.5-1 install ok installed r-cran-viridislite r-cran-viridislite 0.4.2-2 install ok installed r-cran-withr r-cran-withr 3.0.1+dfsg-1 install ok installed radiant radiant 2.8.1+dfsg-2 install ok installed raxml raxml 8.2.13+dfsg-1+b1 install ok installed readline-common readline-common 8.2-5 install ok installed samtools samtools 1.20-3 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed seqtk seqtk 1.4-2 install ok installed shared-mime-info shared-mime-info 2.4-5+b1 install ok installed systemd systemd 256.7-1 install ok installed systemd-sysv systemd-sysv 256.7-1 install ok installed sysvinit-utils sysvinit-utils 3.10-2 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-3 install ok installed ucf ucf 3.0043+nmu1 install ok installed unzip unzip 6.0-28 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-9 install ok installed x11-common x11-common 1:7.7+23.1 install ok installed xdg-utils xdg-utils 1.1.3-4.1 install ok installed xkb-data xkb-data 2.42-1 install ok installed zip zip 3.0-14 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 1m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'remove', 'adapterremoval', 'adduser', 'adwaita-icon-theme', 'at-spi2-common', 'bcftools', 'bedtools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'dbus', 'dbus-bin', 'dbus-daemon', 'dbus-session-bus-common', 'dbus-system-bus-common', 'dbus-user-session', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'examl', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'ibverbs-providers:amd64', 'java-common', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libapparmor1:amd64', 'libasound2-data', 'libasound2t64:amd64', 'libatk-bridge2.0-0t64:amd64', 'libatk1.0-0t64:amd64', 'libatomic1:amd64', 'libatspi2.0-0t64:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbarclay-java', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcbor0.10:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgatk-native-bindings-java', 'libgbm1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgkl-java', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgsl-dev', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libharfbuzz0b:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjoptsimple-java', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'libllvm19:amd64', 'liblog4j2-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenmpi3t64:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.38t64:amd64', 'libpicard-java', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libslf4j-java', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libucx0:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwayland-server0:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libz3-4:amd64', 'littler', 'mafft', 'mapdamage', 'media-types', 'mesa-libgallium:amd64', 'ncbi-vdb-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl', 'perl', 'perl-modules-5.38', 'phylip', 'picard-tools', 'procps', 'python3', 'python3-coloredlogs', 'python3-configargparse', 'python3-humanfriendly', 'python3-minimal', 'python3-monotonic', 'python3-pysam', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-setproctitle:amd64', 'python3.12', 'python3.12-minimal', 'r-base-core', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-fansi', 'r-cran-farver', 'r-cran-foreach', 'r-cran-gam', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', 'r-cran-inline', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppgsl', 'r-cran-rlang', 'r-cran-scales', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'radiant', 'raxml', 'readline-common', 'samtools', 'sensible-utils', 'seqtk', 'shared-mime-info', 'systemd', 'systemd-sysv', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'xkb-data', 'zip', 'paleomix'] 1m35.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: adapterremoval adduser adwaita-icon-theme at-spi2-common bcftools bedtools bowtie2 bwa ca-certificates ca-certificates-java dbus dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common dbus-user-session dconf-gsettings-backend dconf-service default-jre default-jre-headless examl fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme ibverbs-providers java-common libamd-comgr2 libamdhip64-5 libapache-pom-java libapparmor1 libasound2-data libasound2t64 libatk-bridge2.0-0t64 libatk1.0-0t64 libatomic1 libatspi2.0-0t64 libavahi-client3 libavahi-common-data libavahi-common3 libbarclay-java libblas3 libbrotli1 libcairo-gobject2 libcairo2 libcbor0.10 libcloudproviders0 libcolord2 libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcups2t64 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdbus-1-3 libdconf1 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-radeon1 libdrm2 libedit2 libelf1t64 libepoxy0 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libfabric1 libfido2-1 libfontconfig1 libfreemarker-java libfreetype6 libfribidi0 libgatk-native-bindings-java libgbm1 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgkl-java libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgoogle-gson-java libgraphite2-3 libgsl-dev libgsl28 libgslcblas0 libgssapi-krb5-2 libgtk-3-0t64 libgtk-3-common libharfbuzz0b libhsa-runtime64-1 libhsakmt1 libhts3t64 libhtscodecs2 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libice6 libicu72 libjbig0 libjoptsimple-java libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 liblightcouch-java libllvm17t64 libllvm19 liblog4j2-java libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmjson-java libmongodb-java libmunge2 libncbi-ngs3 libncbi-vdb3 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-gnutls8 libnl-3-200 libnl-route-3-200 libnsl2 libnspr4 libnss3 libnuma1 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenmpi3t64 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcsclite1 libperl5.38t64 libpicard-java libpixman-1-0 libpmix2t64 libpng16-16t64 libproc2-0 libpsl5t64 libpsm-infinipath1 libpsm2-2 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib librdmacm1t64 libreadline8t64 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv0 libslf4j-java libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libsystemd-shared libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libucx0 libvulkan1 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwayland-server0 libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml2 libxnvctrl0 libxrandr2 libxrender1 libxshmfence1 libxss1 libxt6t64 libxtst6 libxxf86vm1 libz3-4 littler mafft mapdamage media-types mesa-libgallium ncbi-vdb-data netbase ocl-icd-libopencl1 openjdk-21-jre openjdk-21-jre-headless openmpi-bin openmpi-common openssh-client openssl paleomix perl perl-modules-5.38 phylip picard-tools procps python3 python3-coloredlogs python3-configargparse python3-humanfriendly python3-minimal python3-monotonic python3-pysam python3-ruamel.yaml python3-ruamel.yaml.clib python3-setproctitle python3.12 python3.12-minimal r-base-core r-cran-cli r-cran-codetools r-cran-colorspace r-cran-fansi r-cran-farver r-cran-foreach r-cran-gam r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-inline r-cran-isoband r-cran-iterators r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppgsl r-cran-rlang r-cran-scales r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr radiant raxml readline-common samtools sensible-utils seqtk shared-mime-info systemd systemd-sysv ucf unzip x11-common xdg-utils xkb-data zip 0 upgraded, 0 newly installed, 334 to remove and 0 not upgraded. After this operation, 1273 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 ... 23923 files and directories currently installed.) Removing paleomix (1.3.8-2) ... Removing adapterremoval (2.3.3-3) ... Removing examl (3.0.22-5+b1) ... Removing openmpi-bin (4.1.6-13.3) ... Removing libopenmpi3t64:amd64 (4.1.6-13.3) ... Removing libucx0:amd64 (1.17.0+ds-3) ... Removing libfabric1:amd64 (1.17.0-3+b1) ... Removing librdmacm1t64:amd64 (52.0-2) ... Removing openssh-client (1:9.9p1-1) ... Removing picard-tools (3.1.1+dfsg-1) ... Removing default-jre (2:1.21-76) ... Removing openjdk-21-jre:amd64 (21.0.5~8ea-1) ... Removing libgtk-3-0t64:amd64 (3.24.43-4) ... Removing adwaita-icon-theme (47.0-2) ... Removing libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Removing libatk1.0-0t64:amd64 (2.54.0-1) ... Removing at-spi2-common (2.54.0-1) ... Removing bcftools (1.20-2) ... Removing bedtools (2.31.1+dfsg-2) ... Removing bowtie2 (2.5.4-1) ... Removing bwa (0.7.18-1) ... Removing mapdamage (2.2.2+dfsg-1) ... Removing r-cran-ggplot2 (3.5.1+dfsg-1) ... Removing r-cran-mgcv (1.9-1-1) ... Removing r-cran-matrix (1.7-0-3) ... Removing r-cran-rcppgsl (0.3.13-1+b1) ... Removing r-cran-rcpp (1.0.13-1) ... Removing r-cran-scales (1.3.0-1) ... Removing r-cran-rcolorbrewer (1.1-3-1) ... Removing r-cran-withr (3.0.1+dfsg-1) ... Removing default-jre-headless (2:1.21-76) ... Removing openjdk-21-jre-headless:amd64 (21.0.5~8ea-1) ... Removing ca-certificates-java (20240118) ... Removing libgtk-3-common (3.24.43-4) ... Removing dconf-gsettings-backend:amd64 (0.40.0-4+b2) ... Removing dconf-service (0.40.0-4+b2) ... Removing dbus-user-session (1.14.10-4+b1) ... Removing libpam-systemd:amd64 (256.7-1) ... Removing dbus (1.14.10-4+b1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of stop. Removing dbus-daemon (1.14.10-4+b1) ... Removing dbus-bin (1.14.10-4+b1) ... Removing dbus-session-bus-common (1.14.10-4) ... Removing dbus-system-bus-common (1.14.10-4) ... Removing libcairo-gobject2:amd64 (1.18.2-2) ... Removing gtk-update-icon-cache (4.16.3+ds-1) ... Removing hicolor-icon-theme (0.18-1) ... Removing ibverbs-providers:amd64 (52.0-2) ... Removing java-common (0.76) ... Removing libamdhip64-5 (5.7.1-5) ... Removing libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b1) ... Removing libpicard-java (3.1.1+dfsg-1) ... Removing libgkl-java (0.8.11+dfsg-2) ... Removing libhtsjdk-java (4.1.0+dfsg-2) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing libbarclay-java (5.0.0+dfsg-1) ... Removing liblog4j2-java (2.19.0-2) ... Removing liblightcouch-java (0.2.0-1) ... Removing libhttpclient-java (4.5.14-1) ... Removing libcommons-logging-java (1.3.0-1) ... Removing libcommons-lang3-java (3.14.0-1) ... Removing systemd-sysv (256.7-1) ... Removing systemd (256.7-1) ... Removing libsystemd-shared:amd64 (256.7-1) ... Removing libapparmor1:amd64 (3.1.7-1+b1) ... Removing libasound2t64:amd64 (1.2.12-1) ... Removing libasound2-data (1.2.12-1) ... Removing libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... Removing shared-mime-info (2.4-5+b1) ... Removing libcloudproviders0:amd64 (0.3.6-1) ... Removing libatspi2.0-0t64:amd64 (2.54.0-1) ... Removing libcups2t64:amd64 (2.4.10-2) ... Removing libavahi-client3:amd64 (0.8-13+b2) ... Removing libavahi-common3:amd64 (0.8-13+b2) ... Removing libavahi-common-data:amd64 (0.8-13+b2) ... Removing r-cran-gam (1.22-5-1) ... Removing liblapack3:amd64 (3.12.0-3) ... Removing libblas3:amd64 (3.12.0-3) ... Removing libfido2-1:amd64 (1.15.0-1) ... Removing libcbor0.10:amd64 (0.10.2-2) ... Removing libcolord2:amd64 (1.4.7-1+b1) ... Removing libcommons-codec-java (1.16.0-1) ... Removing libcommons-compress-java (1.25.0-1) ... Removing libcommons-io-java (2.16.1-1) ... Removing libcommons-math3-java (3.6.1-3) ... Removing samtools (1.20-3) ... Removing python3-pysam (0.22.1+ds-2+b1) ... Removing libhts3t64:amd64 (1.20+ds-1) ... Removing libcurl3t64-gnutls:amd64 (8.10.1-1) ... Removing libdbus-1-3:amd64 (1.14.10-4+b1) ... Removing libdconf1:amd64 (0.40.0-4+b2) ... Removing libhsa-runtime64-1:amd64 (5.7.1-3) ... Removing libhsakmt1:amd64 (6.1.2+ds-1) ... Removing libgl1:amd64 (1.7.0-1+b1) ... Removing libglx0:amd64 (1.7.0-1+b1) ... Removing libglx-mesa0:amd64 (24.2.4-1) ... Removing libgl1-mesa-dri:amd64 (24.2.4-1) ... Removing libgbm1:amd64 (24.2.4-1) ... Removing libllvm17t64:amd64 (1:17.0.6-18) ... Removing libepoxy0:amd64 (1.5.10-2) ... Removing libpmix2t64:amd64 (5.0.3-2) ... Removing libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10) ... Removing libevent-core-2.1-7t64:amd64 (2.1.12-stable-10) ... Removing python3-ruamel.yaml (0.18.6+ds-3) ... Removing python3-ruamel.yaml.clib:amd64 (0.2.8+ds-2) ... Removing python3-setproctitle:amd64 (1.3.3-1+b3) ... Removing python3-coloredlogs (15.0.1-1) ... Removing python3-humanfriendly (10.0-6) ... Removing python3-monotonic (1.6-2) ... Removing libfreemarker-java (2.3.32-2) ... Removing libgatk-native-bindings-java (1.0.0+dfsg-2) ... Removing mafft (7.505-1) ... Removing perl (5.38.2-5) ... Removing libperl5.38t64:amd64 (5.38.2-5) ... Removing libgdbm-compat4t64:amd64 (1.24-2) ... Removing libgdbm6t64:amd64 (1.24-2) ... Removing libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... Removing libopenblas-dev:amd64 (0.3.28+ds-2) ... Removing libopenblas-pthread-dev:amd64 (0.3.28+ds-2) ... Removing libopenblas0:amd64 (0.3.28+ds-2) ... Removing libgif7:amd64 (5.2.2-1) ... Removing libglvnd0:amd64 (1.7.0-1+b1) ... Removing libgoogle-gson-java (2.10.1-1) ... Removing libgsl-dev (2.8+dfsg-3) ... Removing libgsl28:amd64 (2.8+dfsg-3) ... Removing libgslcblas0:amd64 (2.8+dfsg-3) ... Removing libhtscodecs2:amd64 (1.6.1-1) ... Removing libhttpcore-java (4.4.16-1) ... Removing libhwloc-plugins:amd64 (2.11.2-1) ... Removing libhwloc15:amd64 (2.11.2-1) ... Removing libibmad5:amd64 (52.0-2) ... Removing libibumad3:amd64 (52.0-2) ... Removing libjoptsimple-java (5.0.4-4) ... Removing liblcms2-2:amd64 (2.14-2+b1) ... Removing libngs-java:amd64 (3.0.3+dfsg-9) ... Removing libngs-jni:amd64 (3.0.3+dfsg-9) ... Removing libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Removing libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Removing libmbedtls14t64:amd64 (2.28.8-1) ... Removing libmbedx509-1t64:amd64 (2.28.8-1) ... Removing libmbedcrypto7t64:amd64 (2.28.8-1) ... Removing libmjson-java (1.4.0-3) ... Removing libmongodb-java (3.6.3-2) ... Removing libmunge2:amd64 (0.5.15-4) ... Removing libncurses6:amd64 (6.5-2) ... Removing procps (2:4.0.4-6) ... Removing libnghttp3-9:amd64 (1.4.0-1) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Removing libngtcp2-16:amd64 (1.6.0-1) ... Removing libnss3:amd64 (2:3.105-2) ... Removing libnspr4:amd64 (2:4.35-1.1+b1) ... Removing libpsm2-2 (11.2.185-2.1) ... Removing libnuma1:amd64 (2.0.18-1) ... Removing libpcsclite1:amd64 (2.3.0-1) ... Removing libproc2-0:amd64 (2:4.0.4-6) ... Removing libpsm-infinipath1 (3.3+20.604758e7-6.3) ... update-alternatives: warning: alternative /usr/lib/libpsm1/libpsm_infinipath.so.1.16 (part of link group libpsm_infinipath.so.1) doesn't exist; removing from list of alternatives update-alternatives: warning: /etc/alternatives/libpsm_infinipath.so.1 is dangling; it will be updated with best choice Removing librhino-java (1.7.14-2.1) ... Removing libslf4j-java (1.7.32-1) ... Removing libsnappy-java (1.1.10.5-2) ... Removing libsnappy-jni (1.1.10.5-2) ... Removing libsnappy1v5:amd64 (1.2.1-1) ... Removing libvulkan1:amd64 (1.3.290.0-1) ... Removing libwayland-cursor0:amd64 (1.23.0-1) ... Removing libwayland-client0:amd64 (1.23.0-1) ... Removing libwayland-egl1:amd64 (1.23.0-1) ... Removing libwayland-server0:amd64 (1.23.0-1) ... Removing libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Removing libxtst6:amd64 (2:1.2.3-1.1+b1) ... Removing libxcb-glx0:amd64 (1.17.0-2) ... Removing libxcb-randr0:amd64 (1.17.0-2) ... Removing libxcomposite1:amd64 (1:0.4.5-1+b1) ... Removing libxcursor1:amd64 (1:1.2.2-1) ... Removing libxdamage1:amd64 (1:1.1.6-1+b1) ... Removing libxfixes3:amd64 (1:6.0.0-2+b1) ... Removing libxi6:amd64 (2:1.8.2-1) ... Removing libxinerama1:amd64 (2:1.1.4-3+b1) ... Removing libxkbcommon0:amd64 (1.6.0-1+b1) ... Removing libxnvctrl0:amd64 (535.171.04-1) ... Removing libxrandr2:amd64 (2:1.5.4-1) ... Removing littler (0.3.20-1) ... Removing ncbi-vdb-data (3.0.2+dfsg-2) ... Removing ocl-icd-libopencl1:amd64 (2.3.2-1+b1) ... Removing openmpi-common (4.1.6-13.3) ... Removing perl-modules-5.38 (5.38.2-5) ... Removing phylip (1:3.697+dfsg-4) ... Removing python3-configargparse (1.7-1) ... Removing r-cran-tibble (3.2.1+dfsg-2) ... Removing r-cran-pillar (1.9.0+dfsg-1) ... Removing r-cran-vctrs (0.6.5-1) ... Removing r-cran-gtable (0.3.5+dfsg-1) ... Removing r-cran-lifecycle (1.0.4+dfsg-1) ... Removing r-cran-cli (3.6.3-1) ... Removing r-cran-foreach (1.5.2-1) ... Removing r-cran-codetools (0.2-20-1) ... Removing r-cran-munsell (0.5.1-1) ... Removing r-cran-colorspace (2.1-1+dfsg-1) ... Removing r-cran-fansi (1.0.5-1) ... Removing r-cran-farver (2.1.2-1) ... Removing r-cran-glue (1.7.0-1) ... Removing r-cran-inline (0.3.19-2) ... Removing r-cran-isoband (0.2.7-1) ... Removing r-cran-iterators (1.0.14-1) ... Removing r-cran-labeling (0.4.3-1) ... Removing r-cran-nlme (3.1.166-1) ... Removing r-cran-lattice (0.22-6-1) ... Removing r-cran-littler (0.3.20-1) ... Removing r-cran-magrittr (2.0.3-1) ... Removing r-cran-mass (7.3-61-1) ... Removing r-cran-pkgconfig (2.0.3-2) ... Removing r-cran-pkgkitten (0.2.4-1) ... Removing r-cran-r6 (2.5.1-1) ... Removing r-cran-rlang (1.1.4-1) ... Removing r-cran-utf8 (1.2.4-1) ... Removing r-cran-viridislite (0.4.2-2) ... Removing radiant (2.8.1+dfsg-2) ... Removing raxml (8.2.13+dfsg-1+b1) ... Removing seqtk (1.4-2) ... Removing xkb-data (2.42-1) ... Removing libibverbs1:amd64 (52.0-2) ... Removing adduser (3.137) ... Removing r-base-core (4.4.1-3) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.54.0+ds-2) ... Removing libpangoft2-1.0-0:amd64 (1.54.0+ds-2) ... Removing libpango-1.0-0:amd64 (1.54.0+ds-2) ... Removing fontconfig (2.15.0-1.1) ... Removing libtk8.6:amd64 (8.6.15-1) ... Removing libxft2:amd64 (2.3.6-1+b1) ... Removing libcairo2:amd64 (1.18.2-2) ... Removing libfontconfig1:amd64 (2.15.0-1.1) ... Removing fontconfig-config (2.15.0-1.1) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing libcommons-parent-java (56-1) ... Removing libapache-pom-java (29-2) ... Removing libharfbuzz0b:amd64 (9.0.0-1) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing libcurl4t64:amd64 (8.10.1-1) ... Removing libbrotli1:amd64 (1.1.0-2+b4) ... Removing libthai0:amd64 (0.1.29-2) ... Removing libdatrie1:amd64 (0.2.13-3) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.22-1) ... Removing mesa-libgallium:amd64 (24.2.4-1) ... Removing libdrm-amdgpu1:amd64 (2.4.123-1) ... Removing libdrm-intel1:amd64 (2.4.123-1) ... Removing libdrm-radeon1:amd64 (2.4.123-1) ... Removing libllvm19:amd64 (1:19.1.1-1) ... Removing libedit2:amd64 (3.1-20240808-1) ... Removing libelf1t64:amd64 (0.191-2) ... Removing python3 (3.12.6-1) ... Removing python3.12 (3.12.7-1) ... Removing python3-minimal (3.12.6-1) ... Removing python3.12-minimal (3.12.7-1) ... Removing libexpat1:amd64 (2.6.3-1) ... Removing libfribidi0:amd64 (1.0.15-1) ... Removing libopenblas0-pthread:amd64 (0.3.28+ds-2) ... Removing libgfortran5:amd64 (14.2.0-6) ... Removing libglapi-mesa:amd64 (24.2.4-1) ... Removing libgomp1:amd64 (14.2.0-6) ... Removing libgraphite2-3:amd64 (1.3.14-2) ... Removing libpython3-stdlib:amd64 (3.12.6-1) ... Removing libpython3.12-stdlib:amd64 (3.12.7-1) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-3+b2) ... Removing libtirpc3t64:amd64 (1.3.4+ds-1.3) ... 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 (1.21.3-3) ... Removing libxt6t64:amd64 (1:1.2.1-1.2) ... Removing libsm6:amd64 (2:1.2.3-1+b1) ... Removing libice6:amd64 (2:1.0.10-1+b1) ... Removing libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Removing libicu72:amd64 (72.1-5) ... Removing libjbig0:amd64 (2.1-6.1+b1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-3) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing libncursesw6:amd64 (6.5-2) ... Removing libnghttp2-14:amd64 (1.63.0-1) ... Removing libnl-route-3-200:amd64 (3.7.0-0.3) ... Removing libnl-3-200:amd64 (3.7.0-0.3) ... Removing libpaper-utils (1.1.29+b1) ... Removing libpaper1:amd64 (1.1.29+b1) ... Removing libpciaccess0:amd64 (0.17-3+b1) ... Removing libpixman-1-0:amd64 (0.42.2-1+b1) ... Removing libpng16-16t64:amd64 (1.6.44-2) ... Removing libpsl5t64:amd64 (0.21.2-1.1) ... Removing libpython3.12-minimal:amd64 (3.12.7-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.2-5) ... 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 librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Removing libsensors5:amd64 (1:3.6.0-10) ... Removing libsensors-config (1:3.6.0-10) ... Removing libwebp7:amd64 (1.4.0-0.1) ... Removing libsharpyuv0:amd64 (1.4.0-0.1) ... Removing libsqlite3-0:amd64 (3.46.1-1) ... Removing libssh2-1t64:amd64 (1.11.0-7) ... Removing libtcl8.6:amd64 (8.6.15+dfsg-2) ... Removing libthai-data (0.1.29-2) ... Removing libtirpc-common (1.3.4+ds-1.3) ... Removing libx11-xcb1:amd64 (2:1.8.7-1+b1) ... Removing libxcb-xfixes0:amd64 (1.17.0-2) ... Removing libxcb-sync1:amd64 (1.17.0-2) ... Removing libxcb-dri2-0:amd64 (1.17.0-2) ... Removing libxcb-dri3-0:amd64 (1.17.0-2) ... Removing libxcb-present0:amd64 (1.17.0-2) ... Removing libxcb-render0:amd64 (1.17.0-2) ... Removing libxcb-shm0:amd64 (1.17.0-2) ... Removing libxss1:amd64 (1:1.2.3-1+b1) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b1) ... Removing libxshmfence1:amd64 (1.3-1+b1) ... Removing libz3-4:amd64 (4.8.12-3.1+b2) ... Removing media-types (10.1.0) ... Removing netbase (6.4) ... Removing openssl (3.3.2-1) ... Removing readline-common (8.2-5) ... Removing ucf (3.0043+nmu1) ... Removing sensible-utils (0.0.24) ... Removing unzip (6.0-28) ... Removing x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xdg-utils (1.1.3-4.1) ... Removing zip (3.0-14) ... Removing libglib2.0-0t64:amd64 (2.82.1-1) ... Removing libatomic1:amd64 (14.2.0-6) ... Removing libdrm2:amd64 (2.4.123-1) ... Removing libdrm-common (2.4.123-1) ... Removing libx11-6:amd64 (2:1.8.7-1+b1) ... Removing libx11-data (2:1.8.7-1) ... Removing libxcb1:amd64 (1.17.0-2) ... Removing libxau6:amd64 (1:1.0.9-1+b1) ... Removing libxdmcp6:amd64 (1:1.1.2-3+b1) ... Processing triggers for libc-bin (2.40-3) ... 1m35.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'remove', 'adapterremoval', 'adduser', 'adwaita-icon-theme', 'at-spi2-common', 'bcftools', 'bedtools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'dbus', 'dbus-bin', 'dbus-daemon', 'dbus-session-bus-common', 'dbus-system-bus-common', 'dbus-user-session', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'examl', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'ibverbs-providers:amd64', 'java-common', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libapparmor1:amd64', 'libasound2-data', 'libasound2t64:amd64', 'libatk-bridge2.0-0t64:amd64', 'libatk1.0-0t64:amd64', 'libatomic1:amd64', 'libatspi2.0-0t64:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbarclay-java', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcbor0.10:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgatk-native-bindings-java', 'libgbm1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgkl-java', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgsl-dev', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libharfbuzz0b:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjoptsimple-java', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'libllvm19:amd64', 'liblog4j2-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenmpi3t64:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.38t64:amd64', 'libpicard-java', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libslf4j-java', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libucx0:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwayland-server0:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libz3-4:amd64', 'littler', 'mafft', 'mapdamage', 'media-types', 'mesa-libgallium:amd64', 'ncbi-vdb-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl', 'perl', 'perl-modules-5.38', 'phylip', 'picard-tools', 'procps', 'python3', 'python3-coloredlogs', 'python3-configargparse', 'python3-humanfriendly', 'python3-minimal', 'python3-monotonic', 'python3-pysam', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-setproctitle:amd64', 'python3.12', 'python3.12-minimal', 'r-base-core', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-fansi', 'r-cran-farver', 'r-cran-foreach', 'r-cran-gam', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', 'r-cran-inline', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppgsl', 'r-cran-rlang', 'r-cran-scales', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'radiant', 'raxml', 'readline-common', 'samtools', 'sensible-utils', 'seqtk', 'shared-mime-info', 'systemd', 'systemd-sysv', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'xkb-data', 'zip', 'paleomix'] 1m35.0s INFO: Running scripts post_remove 1m35.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_remove_exceptions'] 1m35.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_remove_exceptions'] 1m35.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--purge', 'adapterremoval', 'adduser', 'adwaita-icon-theme', 'at-spi2-common', 'bcftools', 'bedtools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'dbus', 'dbus-bin', 'dbus-daemon', 'dbus-session-bus-common', 'dbus-system-bus-common', 'dbus-user-session', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'examl', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'ibverbs-providers:amd64', 'java-common', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libapparmor1:amd64', 'libasound2-data', 'libasound2t64:amd64', 'libatk-bridge2.0-0t64:amd64', 'libatk1.0-0t64:amd64', 'libatomic1:amd64', 'libatspi2.0-0t64:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbarclay-java', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcbor0.10:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgatk-native-bindings-java', 'libgbm1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgkl-java', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgsl-dev', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libharfbuzz0b:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjoptsimple-java', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'libllvm19:amd64', 'liblog4j2-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenmpi3t64:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.38t64:amd64', 'libpicard-java', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libslf4j-java', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libucx0:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwayland-server0:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libz3-4:amd64', 'littler', 'mafft', 'mapdamage', 'media-types', 'mesa-libgallium:amd64', 'ncbi-vdb-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl', 'perl', 'perl-modules-5.38', 'phylip', 'picard-tools', 'procps', 'python3', 'python3-coloredlogs', 'python3-configargparse', 'python3-humanfriendly', 'python3-minimal', 'python3-monotonic', 'python3-pysam', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-setproctitle:amd64', 'python3.12', 'python3.12-minimal', 'r-base-core', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-fansi', 'r-cran-farver', 'r-cran-foreach', 'r-cran-gam', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', 'r-cran-inline', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppgsl', 'r-cran-rlang', 'r-cran-scales', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'radiant', 'raxml', 'readline-common', 'samtools', 'sensible-utils', 'seqtk', 'shared-mime-info', 'systemd', 'systemd-sysv', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'xkb-data', 'zip'] 1m37.3s DUMP: dpkg: warning: ignoring request to remove adapterremoval which isn't installed (Reading database ... 5286 files and directories currently installed.) Purging configuration files for adduser (3.137) ... Purging configuration files for adwaita-icon-theme (47.0-2) ... dpkg: warning: ignoring request to remove at-spi2-common which isn't installed dpkg: warning: ignoring request to remove bcftools which isn't installed dpkg: warning: ignoring request to remove bedtools which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed dpkg: warning: ignoring request to remove bwa which isn't installed Purging configuration files for ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20240118) ... Purging configuration files for dbus (1.14.10-4+b1) ... rmdir: failed to remove '/var/run/dbus': Directory not empty rmdir: failed to remove '/var/lib/dbus': Directory not empty dpkg: warning: while removing dbus, directory '/var/lib/dbus' not empty so not removed dpkg: warning: ignoring request to remove dbus-bin which isn't installed Purging configuration files for dbus-daemon (1.14.10-4+b1) ... dpkg: warning: ignoring request to remove dbus-session-bus-common which isn't installed dpkg: warning: ignoring request to remove dbus-system-bus-common which isn't installed Purging configuration files for dbus-user-session (1.14.10-4+b1) ... dpkg: warning: ignoring request to remove dconf-gsettings-backend which isn't installed dpkg: warning: ignoring request to remove dconf-service which isn't installed dpkg: warning: ignoring request to remove default-jre which isn't installed dpkg: warning: ignoring request to remove default-jre-headless which isn't installed dpkg: warning: ignoring request to remove examl which isn't installed Purging configuration files for fontconfig (2.15.0-1.1) ... Purging configuration files for fontconfig-config (2.15.0-1.1) ... dpkg: warning: while removing fontconfig-config, directory '/etc/fonts/conf.d' not empty so not removed Purging configuration files for fonts-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: while removing fonts-dejavu-mono, directory '/etc/fonts' not empty so not removed dpkg: warning: ignoring request to remove gtk-update-icon-cache which isn't installed dpkg: warning: ignoring request to remove hicolor-icon-theme which isn't installed Purging configuration files for ibverbs-providers:amd64 (52.0-2) ... Purging configuration files for java-common (0.76) ... dpkg: warning: ignoring request to remove libamd-comgr2 which isn't installed dpkg: warning: ignoring request to remove libamdhip64-5 which isn't installed dpkg: warning: ignoring request to remove libapache-pom-java which isn't installed dpkg: warning: ignoring request to remove libapparmor1 which isn't installed dpkg: warning: ignoring request to remove libasound2-data which isn't installed dpkg: warning: ignoring request to remove libasound2t64 which isn't installed dpkg: warning: ignoring request to remove libatk-bridge2.0-0t64 which isn't installed dpkg: warning: ignoring request to remove libatk1.0-0t64 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libatspi2.0-0t64 which isn't installed dpkg: warning: ignoring request to remove libavahi-client3 which isn't installed dpkg: warning: ignoring request to remove libavahi-common-data which isn't installed dpkg: warning: ignoring request to remove libavahi-common3 which isn't installed dpkg: warning: ignoring request to remove libbarclay-java which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcairo-gobject2 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcbor0.10 which isn't installed dpkg: warning: ignoring request to remove libcloudproviders0 which isn't installed dpkg: warning: ignoring request to remove libcolord2 which isn't installed dpkg: warning: ignoring request to remove libcommons-codec-java which isn't installed dpkg: warning: ignoring request to remove libcommons-compress-java which isn't installed dpkg: warning: ignoring request to remove libcommons-io-java which isn't installed dpkg: warning: ignoring request to remove libcommons-jexl2-java which isn't installed dpkg: warning: ignoring request to remove libcommons-lang3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-logging-java which isn't installed dpkg: warning: ignoring request to remove libcommons-math3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-parent-java which isn't installed dpkg: warning: ignoring request to remove libcups2t64 which isn't installed dpkg: warning: ignoring request to remove libcurl3t64-gnutls which isn't installed dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libdconf1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed dpkg: warning: ignoring request to remove libdrm-common which isn't installed dpkg: warning: ignoring request to remove libdrm-intel1 which isn't installed dpkg: warning: ignoring request to remove libdrm-radeon1 which isn't installed dpkg: warning: ignoring request to remove libdrm2 which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libelf1t64 which isn't installed dpkg: warning: ignoring request to remove libepoxy0 which isn't installed dpkg: warning: ignoring request to remove libevent-core-2.1-7t64 which isn't installed dpkg: warning: ignoring request to remove libevent-pthreads-2.1-7t64 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfabric1 which isn't installed dpkg: warning: ignoring request to remove libfido2-1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreemarker-java which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgatk-native-bindings-java which isn't installed dpkg: warning: ignoring request to remove libgbm1 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which isn't installed dpkg: warning: ignoring request to remove libgdbm6t64 which isn't installed Purging configuration files for libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-common which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgif7 which isn't installed dpkg: warning: ignoring request to remove libgkl-java which isn't installed dpkg: warning: ignoring request to remove libgl1 which isn't installed Purging configuration files for libgl1-mesa-dri:amd64 (24.2.4-1) ... dpkg: warning: ignoring request to remove libglapi-mesa which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.82.1-1) ... dpkg: warning: ignoring request to remove libglvnd0 which isn't installed dpkg: warning: ignoring request to remove libglx-mesa0 which isn't installed dpkg: warning: ignoring request to remove libglx0 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgoogle-gson-java which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libgsl-dev which isn't installed dpkg: warning: ignoring request to remove libgsl28 which isn't installed dpkg: warning: ignoring request to remove libgslcblas0 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... Purging configuration files for libgtk-3-0t64:amd64 (3.24.43-4) ... Purging configuration files for libgtk-3-common (3.24.43-4) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhsa-runtime64-1 which isn't installed dpkg: warning: ignoring request to remove libhsakmt1 which isn't installed dpkg: warning: ignoring request to remove libhts3t64 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libhtsjdk-java which isn't installed dpkg: warning: ignoring request to remove libhttpclient-java which isn't installed dpkg: warning: ignoring request to remove libhttpcore-java which isn't installed dpkg: warning: ignoring request to remove libhwloc-plugins which isn't installed dpkg: warning: ignoring request to remove libhwloc15 which isn't installed dpkg: warning: ignoring request to remove libibmad5 which isn't installed dpkg: warning: ignoring request to remove libibumad3 which isn't installed dpkg: warning: ignoring request to remove libibverbs1 which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjoptsimple-java which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove liblightcouch-java which isn't installed dpkg: warning: ignoring request to remove libllvm17t64 which isn't installed dpkg: warning: ignoring request to remove libllvm19 which isn't installed dpkg: warning: ignoring request to remove liblog4j2-java which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7t64 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14t64 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1t64 which isn't installed dpkg: warning: ignoring request to remove libmjson-java which isn't installed dpkg: warning: ignoring request to remove libmongodb-java which isn't installed dpkg: warning: ignoring request to remove libmunge2 which isn't installed dpkg: warning: ignoring request to remove libncbi-ngs3 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnghttp3-9 which isn't installed dpkg: warning: ignoring request to remove libngs-java which isn't installed dpkg: warning: ignoring request to remove libngs-jni which isn't installed dpkg: warning: ignoring request to remove libngtcp2-16 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-crypto-gnutls8 which isn't installed Purging configuration files for libnl-3-200:amd64 (3.7.0-0.3) ... dpkg: warning: ignoring request to remove libnl-route-3-200 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 which isn't installed dpkg: warning: ignoring request to remove libnuma1 which isn't installed dpkg: warning: ignoring request to remove libopenblas-dev which isn't installed dpkg: warning: ignoring request to remove libopenblas-pthread-dev which isn't installed dpkg: warning: ignoring request to remove libopenblas0 which isn't installed dpkg: warning: ignoring request to remove libopenblas0-pthread which isn't installed dpkg: warning: ignoring request to remove libopenmpi3t64 which isn't installed dpkg: warning: ignoring request to remove libpam-systemd which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpaper-utils which isn't installed Purging configuration files for libpaper1:amd64 (1.1.29+b1) ... dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove libperl5.38t64 which isn't installed dpkg: warning: ignoring request to remove libpicard-java which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpmix2t64 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libproc2-0 which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed Purging configuration files for libpsm-infinipath1 (3.3+20.604758e7-6.3) ... dpkg: warning: ignoring request to remove libpsm2-2 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.12-minimal:amd64 (3.12.7-1) ... dpkg: warning: ignoring request to remove libpython3.12-stdlib which isn't installed dpkg: warning: ignoring request to remove librdmacm1t64 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-5) ... dpkg: warning: ignoring request to remove librhino-java which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed Purging configuration files for libsensors-config (1:3.6.0-10) ... dpkg: warning: ignoring request to remove libsensors5 which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libslf4j-java which isn't installed dpkg: warning: ignoring request to remove libsm6 which isn't installed dpkg: warning: ignoring request to remove libsnappy-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-jni which isn't installed dpkg: warning: ignoring request to remove libsnappy1v5 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libsystemd-shared which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.3) ... Purging configuration files for libtirpc3t64:amd64 (1.3.4+ds-1.3) ... dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libucx0 which isn't installed dpkg: warning: ignoring request to remove libvulkan1 which isn't installed dpkg: warning: ignoring request to remove libwayland-client0 which isn't installed dpkg: warning: ignoring request to remove libwayland-cursor0 which isn't installed dpkg: warning: ignoring request to remove libwayland-egl1 which isn't installed dpkg: warning: ignoring request to remove libwayland-server0 which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libx11-xcb1 which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri2-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri3-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-glx0 which isn't installed dpkg: warning: ignoring request to remove libxcb-present0 which isn't installed dpkg: warning: ignoring request to remove libxcb-randr0 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb-sync1 which isn't installed dpkg: warning: ignoring request to remove libxcb-xfixes0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxcomposite1 which isn't installed dpkg: warning: ignoring request to remove libxcursor1 which isn't installed dpkg: warning: ignoring request to remove libxdamage1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxfixes3 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxi6 which isn't installed dpkg: warning: ignoring request to remove libxinerama1 which isn't installed dpkg: warning: ignoring request to remove libxkbcommon0 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxnvctrl0 which isn't installed dpkg: warning: ignoring request to remove libxrandr2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxshmfence1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libxt6t64 which isn't installed dpkg: warning: ignoring request to remove libxtst6 which isn't installed dpkg: warning: ignoring request to remove libxxf86vm1 which isn't installed dpkg: warning: ignoring request to remove libz3-4 which isn't installed dpkg: warning: ignoring request to remove littler which isn't installed dpkg: warning: ignoring request to remove mafft which isn't installed dpkg: warning: ignoring request to remove mapdamage which isn't installed Purging configuration files for media-types (10.1.0) ... dpkg: warning: ignoring request to remove mesa-libgallium which isn't installed dpkg: warning: ignoring request to remove ncbi-vdb-data which isn't installed Purging configuration files for netbase (6.4) ... dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which isn't installed dpkg: warning: ignoring request to remove openjdk-21-jre which isn't installed Purging configuration files for openjdk-21-jre-headless:amd64 (21.0.5~8ea-1) ... Purging configuration files for openmpi-bin (4.1.6-13.3) ... dpkg: warning: ignoring request to remove openmpi-common which isn't installed Purging configuration files for openssh-client (1:9.9p1-1) ... Purging configuration files for openssl (3.3.2-1) ... Purging configuration files for perl (5.38.2-5) ... dpkg: warning: ignoring request to remove perl-modules-5.38 which isn't installed dpkg: warning: ignoring request to remove phylip which isn't installed dpkg: warning: ignoring request to remove picard-tools which isn't installed Purging configuration files for procps (2:4.0.4-6) ... Purging configuration files for python3 (3.12.6-1) ... dpkg: warning: ignoring request to remove python3-coloredlogs which isn't installed dpkg: warning: ignoring request to remove python3-configargparse which isn't installed dpkg: warning: ignoring request to remove python3-humanfriendly which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-monotonic which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-ruamel.yaml which isn't installed dpkg: warning: ignoring request to remove python3-ruamel.yaml.clib which isn't installed dpkg: warning: ignoring request to remove python3-setproctitle which isn't installed dpkg: warning: ignoring request to remove python3.12 which isn't installed Purging configuration files for python3.12-minimal (3.12.7-1) ... Purging configuration files for r-base-core (4.4.1-3) ... dpkg: warning: ignoring request to remove r-cran-cli which isn't installed dpkg: warning: ignoring request to remove r-cran-codetools which isn't installed dpkg: warning: ignoring request to remove r-cran-colorspace which isn't installed dpkg: warning: ignoring request to remove r-cran-fansi which isn't installed dpkg: warning: ignoring request to remove r-cran-farver which isn't installed dpkg: warning: ignoring request to remove r-cran-foreach which isn't installed dpkg: warning: ignoring request to remove r-cran-gam which isn't installed dpkg: warning: ignoring request to remove r-cran-ggplot2 which isn't installed dpkg: warning: ignoring request to remove r-cran-glue which isn't installed dpkg: warning: ignoring request to remove r-cran-gtable which isn't installed dpkg: warning: ignoring request to remove r-cran-inline which isn't installed dpkg: warning: ignoring request to remove r-cran-isoband which isn't installed dpkg: warning: ignoring request to remove r-cran-iterators which isn't installed dpkg: warning: ignoring request to remove r-cran-labeling which isn't installed dpkg: warning: ignoring request to remove r-cran-lattice which isn't installed dpkg: warning: ignoring request to remove r-cran-lifecycle which isn't installed dpkg: warning: ignoring request to remove r-cran-littler which isn't installed dpkg: warning: ignoring request to remove r-cran-magrittr which isn't installed dpkg: warning: ignoring request to remove r-cran-mass which isn't installed dpkg: warning: ignoring request to remove r-cran-matrix which isn't installed dpkg: warning: ignoring request to remove r-cran-mgcv which isn't installed dpkg: warning: ignoring request to remove r-cran-munsell which isn't installed dpkg: warning: ignoring request to remove r-cran-nlme which isn't installed dpkg: warning: ignoring request to remove r-cran-pillar which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgconfig which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgkitten which isn't installed dpkg: warning: ignoring request to remove r-cran-r6 which isn't installed dpkg: warning: ignoring request to remove r-cran-rcolorbrewer which isn't installed dpkg: warning: ignoring request to remove r-cran-rcpp which isn't installed dpkg: warning: ignoring request to remove r-cran-rcppgsl which isn't installed dpkg: warning: ignoring request to remove r-cran-rlang which isn't installed dpkg: warning: ignoring request to remove r-cran-scales which isn't installed dpkg: warning: ignoring request to remove r-cran-tibble which isn't installed dpkg: warning: ignoring request to remove r-cran-utf8 which isn't installed dpkg: warning: ignoring request to remove r-cran-vctrs which isn't installed dpkg: warning: ignoring request to remove r-cran-viridislite which isn't installed dpkg: warning: ignoring request to remove r-cran-withr which isn't installed Purging configuration files for radiant (2.8.1+dfsg-2) ... dpkg: warning: ignoring request to remove raxml which isn't installed Purging configuration files for readline-common (8.2-5) ... dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed dpkg: warning: ignoring request to remove seqtk which isn't installed Purging configuration files for shared-mime-info (2.4-5+b1) ... Purging configuration files for systemd (256.7-1) ... dpkg: warning: ignoring request to remove systemd-sysv which isn't installed Purging configuration files for ucf (3.0043+nmu1) ... Purging configuration files for unzip (6.0-28) ... Purging configuration files for x11-common (1:7.7+23.1) ... dpkg: warning: ignoring request to remove xdg-utils which isn't installed dpkg: warning: ignoring request to remove xkb-data which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed 1m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--purge', 'adapterremoval', 'adduser', 'adwaita-icon-theme', 'at-spi2-common', 'bcftools', 'bedtools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'dbus', 'dbus-bin', 'dbus-daemon', 'dbus-session-bus-common', 'dbus-system-bus-common', 'dbus-user-session', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'examl', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'ibverbs-providers:amd64', 'java-common', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libapparmor1:amd64', 'libasound2-data', 'libasound2t64:amd64', 'libatk-bridge2.0-0t64:amd64', 'libatk1.0-0t64:amd64', 'libatomic1:amd64', 'libatspi2.0-0t64:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbarclay-java', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcbor0.10:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgatk-native-bindings-java', 'libgbm1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgkl-java', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgsl-dev', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libharfbuzz0b:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjoptsimple-java', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'libllvm19:amd64', 'liblog4j2-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenmpi3t64:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.38t64:amd64', 'libpicard-java', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libslf4j-java', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libucx0:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwayland-server0:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libz3-4:amd64', 'littler', 'mafft', 'mapdamage', 'media-types', 'mesa-libgallium:amd64', 'ncbi-vdb-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl', 'perl', 'perl-modules-5.38', 'phylip', 'picard-tools', 'procps', 'python3', 'python3-coloredlogs', 'python3-configargparse', 'python3-humanfriendly', 'python3-minimal', 'python3-monotonic', 'python3-pysam', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-setproctitle:amd64', 'python3.12', 'python3.12-minimal', 'r-base-core', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-fansi', 'r-cran-farver', 'r-cran-foreach', 'r-cran-gam', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', 'r-cran-inline', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppgsl', 'r-cran-rlang', 'r-cran-scales', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'radiant', 'raxml', 'readline-common', 'samtools', 'sensible-utils', 'seqtk', 'shared-mime-info', 'systemd', 'systemd-sysv', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'xkb-data', 'zip'] 1m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--purge', 'paleomix'] 1m37.3s DUMP: dpkg: warning: ignoring request to remove paleomix which isn't installed 1m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--purge', 'paleomix'] 1m37.3s INFO: Running scripts post_purge 1m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_purge_exceptions'] 1m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_purge_exceptions'] 1m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--purge', '--pending'] 1m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--purge', '--pending'] 1m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--remove', '--pending'] 1m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg', '--remove', '--pending'] 1m37.4s INFO: Running scripts post_test 1m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_test_exceptions'] 1m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'tmp/scripts/post_test_exceptions'] 1m37.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m37.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m37.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg-divert', '--list'] 1m37.9s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 1m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'dpkg-divert', '--list'] 1m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'clean'] 1m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr', 'apt-get', 'clean'] 1m38.0s DEBUG: Recording chroot state 1m38.8s INFO: Warning: Package purging left files on system: /etc/default/locale -> ../locale.conf not owned /etc/fonts/ owned by: fontconfig-config, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/ owned by: fontconfig-config, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned /etc/vconsole.conf -> default/keyboard not owned /root/.ssh/ not owned /usr/lib/x86_64-linux-gnu/libmpi_usempi_ignore_tkr-gfortranso.40 -> libmpi_usempi_ignore_tkr-gfortran.so.40.30.0 not owned /var/cache/private/ not owned /var/lib/private/ not owned /var/lib/systemd/coredump/ not owned /var/lib/systemd/ephemeral-trees/ not owned /var/lib/systemd/network/ not owned /var/lib/systemd/pstore/ not owned /var/log/private/ not owned 1m39.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/shm'] 1m39.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/shm'] 1m39.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/console'] 1m39.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/console'] 1m39.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/ptmx'] 1m39.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/ptmx'] 1m39.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/pts'] 1m39.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/dev/pts'] 1m39.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/proc'] 1m39.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr/proc'] 1m39.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m39.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpzth9mqlr'] 1m39.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpzth9mqlr 1m39.3s INFO: PASS: Upgrading between Debian distributions. 1m39.3s INFO: PASS: All tests. 1m39.3s INFO: piuparts run ends. ret=0 End: 2024-10-09 21:35:32 GMT