Start: 2026-10-19 14:54:52 GMT Package: pigx-rnaseq Version: 0.1.1-4 Installed-Size: 175 Maintainer: Debian Med Packaging Team Architecture: all Depends: fastp, fastqc, hisat2 | rna-star, libjs-jquery-datatables, libjs-jquery-tablesorter, megadepth, multiqc, python3:any, python3-deeptools, python3-htseq, r-bioc-deseq2, r-bioc-genomeinfodb, r-bioc-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggrepel, r-cran-gprofiler2, r-cran-pheatmap, r-cran-plotly, r-cran-reshape2, r-cran-rjson, r-cran-rlang, r-cran-rmarkdown, r-cran-scales, salmon, samtools, snakemake, trim-galore Description: pipeline for checkpointed and distributed RNA-seq analyses Homepage: https://github.com/BIMSBbioinfo/pigx_rnaseq Commands: pigx-rnaseq Description-md5: e48b7ff1eb2b189a5bedb2ce0c32035c Section: science Priority: optional Filename: pool/main/p/pigx-rnaseq/pigx-rnaseq_0.1.1-4_all.deb Size: 61108 MD5sum: 137a798063d2f70f449eabae8bfd75db SHA256: c7ab8fb8c229d94a607903467e642c7d78fad7db37cfcb68b0c3171791dc19cd Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/piuparts --install-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt pigx-rnaseq=0.1.1-4 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.6.1~202608291513~1.6.0-23-g1172a6e5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/bin/piuparts --install-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt pigx-rnaseq=0.1.1-4 0m0.0s INFO: Running on: Linux piu-slave-conova-01 6.12.113+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.113-1 (2026-10-15) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp0x7el_gg 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp0x7el_gg 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/proc'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/proc'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/14', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/14', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp0x7el_gg/tmp/scripts/ 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts-leftovers to /srv/piuparts.debian.org/tmp/tmp0x7el_gg/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'update'] 0m4.5s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [193 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.8 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7740 kB] Fetched 18.7 MB in 3s (6093 kB/s) Reading package lists... 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'update'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-yf', 'dist-upgrade'] 0m5.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-yf', 'dist-upgrade'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.7s DUMP: 5575dda894b675aae760eb32fab94c57 - 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.7s INFO: Running scripts post_setup 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_dummy_users'] 0m6.3s 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 0m6.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_dummy_users'] 0m6.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_fake-essential'] 0m8.0s DUMP: *** Adding fake essential packages *** Reading package lists... Building dependency tree... init-system-helpers is already the newest version (1.69+nmu3). Solving dependencies... The following additional packages will be installed: libncursesw6 libproc2-1 libtext-charwidth-perl libtext-wrapi18n-perl procps sensible-utils ucf Suggested packages: dbconfig-mariadb | dbconfig-pgsql | dbconfig-sqlite3 | dbconfig-no-thanks Recommended packages: libgpm2 psmisc linux-sysctl-defaults The following NEW packages will be installed: dbconfig-common libncursesw6 libproc2-1 libtext-charwidth-perl libtext-wrapi18n-perl procps sensible-utils ucf 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 1917 kB of archives. After this operation, 5465 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.6+20260608-2 [137 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libproc2-1 amd64 2:4.0.7-1 [73.0 kB] Get:3 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.7-1 [989 kB] Get:4 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libtext-charwidth-perl amd64 0.04-12+b1 [9344 B] Get:6 http://deb.debian.org/debian sid/main amd64 libtext-wrapi18n-perl all 0.06-11 [7788 B] Get:7 http://deb.debian.org/debian sid/main amd64 ucf all 3.0056 [47.1 kB] Get:8 http://deb.debian.org/debian sid/main amd64 dbconfig-common all 2.1.0 [627 kB] Preconfiguring packages ... Fetched 1917 kB in 0s (27.0 MB/s) Selecting previously unselected package libncursesw6:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4945 files and directories currently installed.) Preparing to unpack .../0-libncursesw6_6.6+20260608-2_amd64.deb ... Unpacking libncursesw6:amd64 (6.6+20260608-2) ... Selecting previously unselected package libproc2-1:amd64. Preparing to unpack .../1-libproc2-1_2%3a4.0.7-1_amd64.deb ... Unpacking libproc2-1:amd64 (2:4.0.7-1) ... Selecting previously unselected package procps. Preparing to unpack .../2-procps_2%3a4.0.7-1_amd64.deb ... Unpacking procps (2:4.0.7-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../3-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libtext-charwidth-perl:amd64. Preparing to unpack .../4-libtext-charwidth-perl_0.04-12+b1_amd64.deb ... Unpacking libtext-charwidth-perl:amd64 (0.04-12+b1) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../5-libtext-wrapi18n-perl_0.06-11_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-11) ... Selecting previously unselected package ucf. Preparing to unpack .../6-ucf_3.0056_all.deb ... Moving old data out of the way Unpacking ucf (3.0056) ... Selecting previously unselected package dbconfig-common. Preparing to unpack .../7-dbconfig-common_2.1.0_all.deb ... Unpacking dbconfig-common (2.1.0) ... Setting up libtext-charwidth-perl:amd64 (0.04-12+b1) ... Setting up libtext-wrapi18n-perl (0.06-11) ... Setting up libproc2-1:amd64 (2:4.0.7-1) ... Setting up libncursesw6:amd64 (6.6+20260608-2) ... Setting up sensible-utils (0.0.26) ... Setting up procps (2:4.0.7-1) ... Setting up ucf (3.0056) ... Setting up dbconfig-common (2.1.0) ... Creating config file /etc/dbconfig-common/config with new version Processing triggers for libc-bin (2.43-7) ... 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_fake-essential'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_forbid_home'] 0m8.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_forbid_home'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_minimize'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_minimize'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_zz_backports'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_setup_zz_backports'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'clean'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'clean'] 0m8.1s DEBUG: Recording chroot state 0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.5s DUMP: install ok installed apt apt 3.3.3 install ok installed base-files base-files 14.2 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-4 install ok installed bsdutils bsdutils 1:2.42.4-1 install ok installed coreutils coreutils 9.10-1 install ok installed dash dash 0.5.12-12 install ok installed dbconfig-common dbconfig-common 2.1.0 install ok installed debconf debconf 1.5.92 install ok installed debian-archive-keyring debian-archive-keyring 2025.1 install ok installed debianutils debianutils 5.24 install ok installed diffutils diffutils 1:3.12-1 install ok installed dpkg dpkg 1.23.11 install ok installed findutils findutils 4.11.0-3 install ok installed gcc-16-base:amd64 gcc-16-base 16.2.0-3 install ok installed grep grep 3.12-1 install ok installed gzip gzip 1.14-1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.69+nmu3 install ok installed libacl1:amd64 libacl1 2.4.0-1 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.3.3 install ok installed libattr1:amd64 libattr1 1:2.6.0-1 install ok installed libaudit-common libaudit-common 1:4.2.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.2.1-1 install ok installed libblkid1:amd64 libblkid1 2.42.4-1 install ok installed libbsd0:amd64 libbsd0 0.12.2-3 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6+b2 install ok installed libc-bin libc-bin 2.43-7 install ok installed libc-gconv-modules-extra:amd64 libc-gconv-modules-extra 2.43-7 install ok installed libc6:amd64 libc6 2.43-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.9.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.2+20251210-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.283 install ok installed libgcc-s1:amd64 libgcc-s1 16.2.0-3 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5+b2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-10 install ok installed liblzma5:amd64 liblzma5 5.8.4-1 install ok installed libmd0:amd64 libmd0 1.3.0-1 install ok installed libmount1:amd64 libmount1 2.42.4-1 install ok installed libncursesw6:amd64 libncursesw6 6.6+20260608-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1+b1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-8 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-8 install ok installed libpam-runtime libpam-runtime 1.7.0-8 install ok installed libpam0g:amd64 libpam0g 1.7.0-8 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.48-3.1 install ok installed libproc2-1:amd64 libproc2-1 2:4.0.7-1 install ok installed libseccomp2:amd64 libseccomp2 2.6.1-1+b1 install ok installed libselinux1:amd64 libselinux1 3.11-2.1 install ok installed libsemanage-common libsemanage-common 3.11-1 install ok installed libsemanage2:amd64 libsemanage2 3.11-1+b1 install ok installed libsepol2:amd64 libsepol2 3.11-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.42.4-1 install ok installed libssl3t64:amd64 libssl3t64 3.6.5-1 install ok installed libstdc++6:amd64 libstdc++6 16.2.0-3 install ok installed libsystemd0:amd64 libsystemd0 262.1-1 install ok installed libtext-charwidth-perl:amd64 libtext-charwidth-perl 0.04-12+b1 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-11 install ok installed libtinfo6:amd64 libtinfo6 6.6+20260608-2 install ok installed libudev1:amd64 libudev1 262.1-1 install ok installed libuuid1:amd64 libuuid1 2.42.4-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-4 install ok installed login login 1:4.16.0-2+really2.42.4-1 install ok installed login.defs login.defs 1:4.20.3-1 install ok installed mawk mawk 1.3.4.20260302-2 install ok installed mount mount 2.42.4-1 install ok installed ncurses-base ncurses-base 6.6+20260608-2 install ok installed ncurses-bin ncurses-bin 6.6+20260608-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.6.5-1 install ok installed passwd passwd 1:4.20.3-1 install ok installed perl-base perl-base 5.42.3-1 install ok installed procps procps 2:4.0.7-1 install ok installed sed sed 4.9-3 install ok installed sensible-utils sensible-utils 0.0.26 install ok installed sqv sqv 1.5.0-1 install ok installed sysvinit-utils sysvinit-utils 3.18-1 install ok installed tar tar 1.35+dfsg-6 install ok installed tzdata tzdata 2026e-1 install ok installed ucf ucf 3.0056 install ok installed util-linux util-linux 2.42.4-1 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.2-3 0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-divert', '--list'] 0m8.5s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-divert', '--list'] 0m8.5s INFO: Running scripts is_testable 0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/is_testable_uninstallable'] 0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/is_testable_uninstallable'] 0m8.6s INFO: apt-cache does not know about any of the requested packages 0m8.6s INFO: Running scripts pre_test 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_test_exceptions'] 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_test_exceptions'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_test_root_password'] 0m8.6s DUMP: New password: Retype new password: passwd: password updated successfully 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_test_root_password'] 0m8.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 0m8.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 0m9.2s DEBUG: No broken symlinks as far as we can find. 0m9.2s INFO: Running scripts pre_install 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_database-server'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_database-server'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_exceptions'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_exceptions'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_extras'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_extras'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'show', '--no-all-versions', 'pigx-rnaseq=0.1.1-4'] 0m10.3s DUMP: Package: pigx-rnaseq Version: 0.1.1-4 Installed-Size: 175 Maintainer: Debian Med Packaging Team Architecture: all Depends: fastp, fastqc, hisat2 | rna-star, libjs-jquery-datatables, libjs-jquery-tablesorter, megadepth, multiqc, python3:any, python3-deeptools, python3-htseq, r-bioc-deseq2, r-bioc-genomeinfodb, r-bioc-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggrepel, r-cran-gprofiler2, r-cran-pheatmap, r-cran-plotly, r-cran-reshape2, r-cran-rjson, r-cran-rlang, r-cran-rmarkdown, r-cran-scales, salmon, samtools, snakemake, trim-galore Description-en: pipeline for checkpointed and distributed RNA-seq analyses This package provides a automated workflow for the automated analysis of RNA-seq experiments. A series of well-accecpted tools are connected in Python scripts and controlled via snakemake. This supports the parallel execution of these workflows and provides checkpointing, such that interrupted workflows can take up their work again. Description-md5: e48b7ff1eb2b189a5bedb2ce0c32035c Homepage: https://github.com/BIMSBbioinfo/pigx_rnaseq Commands: pigx-rnaseq Section: science Priority: optional Filename: pool/main/p/pigx-rnaseq/pigx-rnaseq_0.1.1-4_all.deb Size: 61108 MD5sum: 137a798063d2f70f449eabae8bfd75db SHA256: c7ab8fb8c229d94a607903467e642c7d78fad7db37cfcb68b0c3171791dc19cd 0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'show', '--no-all-versions', 'pigx-rnaseq=0.1.1-4'] 0m10.3s DEBUG: metapackage: Package: piuparts-depends-dummy Version: 0.invalid.0 Architecture: all Maintainer: piuparts developers team Depends: fastp, fastqc, hisat2 | rna-star, libjs-jquery-datatables, libjs-jquery-tablesorter, megadepth, multiqc, python3:any, python3-deeptools, python3-htseq, r-bioc-deseq2, r-bioc-genomeinfodb, r-bioc-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggrepel, r-cran-gprofiler2, r-cran-pheatmap, r-cran-plotly, r-cran-reshape2, r-cran-rjson, r-cran-rlang, r-cran-rmarkdown, r-cran-scales, salmon, samtools, snakemake, trim-galore Description: Dummy package to satisfy dependencies - created by piuparts This package was created automatically by piuparts and can safely be removed 0m10.3s DEBUG: Starting command: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpjm211wyb/piuparts-depends-dummy'] 0m10.3s DUMP: dpkg-deb: warning: not checking contents of control area dpkg-deb: building an unknown package in '/srv/piuparts.debian.org/tmp/tmpjm211wyb/piuparts-depends-dummy.deb'. 0m10.3s DEBUG: Command ok: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpjm211wyb/piuparts-depends-dummy'] 0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m10.3s DUMP: 3.3.3 0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m10.3s DEBUG: Copying /srv/piuparts.debian.org/tmp/tmpjm211wyb/piuparts-depends-dummy.deb to /srv/piuparts.debian.org/tmp/tmp0x7el_gg/tmp 0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb'] 3m42.0s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: adwaita-icon-theme at-spi2-common binutils binutils-common binutils-x86-64-linux-gnu bubblewrap build-essential bzip2 ca-certificates ca-certificates-java coinor-cbc coinor-libcbc3.1 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 cpp cpp-16 cpp-16-x86-64-linux-gnu cpp-x86-64-linux-gnu cutadapt 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 docutils-common dpkg-dev fastp fastqc fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-font-awesome-legacy fonts-glyphicons-halflings fonts-lyx fonts-mathjax g++ g++-16 g++-16-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-16 gcc-16-x86-64-linux-gnu gcc-x86-64-linux-gnu git git-man glycin-loaders glycin-thumbnailers gsettings-desktop-schemas gtk-update-icon-cache hicolor-icon-theme hisat2 java-common javascript-common junit4 libabsl20260526 libaom3 libapache-pom-java libapparmor1 libasan8 libasound2-data libasound2t64 libatk-bridge2.0-0t64 libatk1.0-0t64 libatomic1 libatspi2.0-0t64 libavahi-client3 libavahi-common-data libavahi-common3 libavif16 libbigwig0t64 libbinutils libblas3 libboost-dev libboost-filesystem1.92.0 libboost-iostreams1.92.0 libboost-program-options1.92.0 libboost-regex1.92-dev libboost-regex1.92.0 libboost1.92-dev libbrotli1 libc-dev-bin libc6-dev libcairo-gobject2 libcairo2 libcap2 libcc1-0 libcloudproviders0 libcolord2 libcom-err2 libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libctf-nobfd0 libctf0 libcups2t64 libcurl3t64-gnutls libcurl4-gnutls libcurl4t64 libdatrie1 libdav1d7 libdbus-1-3 libdconf1 libde265-0 libdeflate0 libdpkg-perl libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm2 libedit2 libelf1t64 libepoxy0 liberror-perl libexpat1 libezmorph-java libffi8 libfindbin-libs-perl libfontconfig1 libfreetype6 libfribidi0 libgav1-2 libgbm1 libgcc-16-dev libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgl1 libgl1-mesa-dri libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libglycin-2-0 libgnutls30t64 libgomp1 libgpg-error0 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libgtk-3-0t64 libgtk-3-common libhamcrest-java libharfbuzz-subset0 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libhts3t64 libhtscodecs2 libhtsjdk-java libhwasan0 libhwloc15 libhwy1t64 libice6 libicu78 libidn2-0 libimagequant0 libisal2 libisl23 libitm1 libjansson4 libjaxen-java libjbig0 libjbzip2-java libjemalloc2 libjpeg62-turbo libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables libjs-jquery-datatables-extensions libjs-jquery-metadata libjs-jquery-selectize.js libjs-jquery-tablesorter libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js libjs-sphinxdoc libjs-twitter-bootstrap-datepicker libjson-java libjson-perl libjxl0.11 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm22 liblog4j1.2-java liblsan0 liblua5.4-0 libmbedcrypto16 libmbedtls21 libmbedx509-7 libmpc3 libmpfr6 libncbi-ngs3 libncbi-vdb3 libncurses6 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-gnutls8 libngtcp2-crypto-ossl0 libnlopt1 libnspr4 libnss3 libnuma1 libopenjp2-7 libp11-kit0 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpciaccess0 libpcsclite1 libperl5.42 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.14 libpython3.14-minimal libpython3.14-stdlib libqhull-r8.0 libquadmath0 libraqm0 librav1e0.8 libreadline8t64 librhino-java librsvg2-2 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsframe3 libsharpyuv0 libslf4j-java libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libstaden-read14t64 libstdc++-16-dev libsvtav1enc4 libsystemd-shared libtasn1-6 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libunistring5 libuv1t64 libvulkan1 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2-16 libxom-java libxrandr2 libxrender1 libxres1 libxshmfence1 libxslt1.1 libxss1 libxt6t64 libxtst6 libxxf86vm1 libyaml-0-2 libyuv0 libz3-4 libzopfli1 linux-libc-dev make media-types megadepth mesa-libgallium multiqc ncbi-vdb-data netbase node-bootstrap-sass node-html5shiv node-normalize.css openjdk-25-jre openjdk-25-jre-headless openssl pandoc pandoc-data patch pci.ids perl perl-modules-5.42 pigz python-babel-localedata python-matplotlib-data python3 python3-alabaster python3-attr python3-babel python3-brotli python3-certifi python3-chardet python3-charset-normalizer python3-click python3-coloredlogs python3-colormath python3-configargparse python3-connection-pool python3-contourpy python3-cutadapt python3-cycler python3-dateutil python3-datrie python3-decorator python3-deeptools python3-deeptoolsintervals python3-defusedxml python3-dnaio python3-docutils python3-dpath python3-fastjsonschema python3-fonttools python3-git python3-gitdb python3-htseq python3-humanfriendly python3-humanize python3-idna python3-imagesize python3-jinja2 python3-jsonschema python3-jsonschema-specifications python3-jupyter-core python3-kiwisolver python3-linkify-it python3-lxml python3-lz4 python3-lzstring python3-markdown python3-markdown-it python3-markupsafe python3-matplotlib python3-mdurl python3-minimal python3-mpmath python3-nbformat python3-networkx python3-numpy python3-numpy-dev python3-numpydoc python3-packaging python3-pil python3-pil.imagetk python3-plac python3-platformdirs python3-plotly python3-psutil python3-pulp python3-py2bit python3-pyaml-env python3-pybigwig python3-pygments python3-pyparsing python3-pysam python3-pytz python3-referencing python3-requests python3-retry python3-rich python3-rich-click python3-roman-numerals python3-rpds-py python3-scipy python3-smart-open python3-smmap python3-snowballstemmer python3-spectra python3-sphinx python3-stopit python3-sympy python3-tabulate python3-tenacity python3-throttler python3-tk python3-toposort python3-traitlets python3-uc-micro python3-ufolib2 python3-uharfbuzz python3-urllib3 python3-wrapt python3-xopen python3-yaml python3-yte python3-zopfli python3.14 python3.14-minimal python3.14-tk r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-cigarillo r-bioc-delayedarray r-bioc-deseq2 r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-seqinfo r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-tximport r-bioc-ucsc.utils r-bioc-xvector r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh r-cran-bitops r-cran-boot r-cran-broom r-cran-bslib r-cran-cachem r-cran-car r-cran-cardata r-cran-caret r-cran-class r-cran-cli r-cran-clock r-cran-codetools r-cran-colorspace r-cran-colourpicker r-cran-commonmark r-cran-conquer r-cran-corrplot r-cran-cowplot r-cran-cpp11 r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-data.table r-cran-deriv r-cran-diagram r-cran-digest r-cran-doby r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-evaluate r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-foreach r-cran-forecast r-cran-formatr r-cran-formula r-cran-fracdiff r-cran-fs r-cran-futile.logger r-cran-futile.options r-cran-future r-cran-future.apply r-cran-generics r-cran-ggplot2 r-cran-ggpubr r-cran-ggrepel r-cran-ggsci r-cran-ggsignif r-cran-globals r-cran-glue r-cran-gower r-cran-gprofiler2 r-cran-gridextra r-cran-gtable r-cran-hardhat r-cran-highr r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-ipred r-cran-isoband r-cran-iterators r-cran-jquerylib r-cran-jsonlite r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lava r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lme4 r-cran-lmtest r-cran-locfit r-cran-lubridate r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-microbenchmark r-cran-mime r-cran-miniui r-cran-minqa r-cran-modelmetrics r-cran-modelr r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-otel r-cran-parallelly r-cran-pbkrtest r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plotly r-cran-plyr r-cran-polynom r-cran-proc r-cran-prodlim r-cran-progressr r-cran-promises r-cran-proxy r-cran-purrr r-cran-quantreg r-cran-r6 r-cran-rappdirs r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcurl r-cran-rdpack r-cran-recipes r-cran-reformulas r-cran-reshape2 r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstatix r-cran-s7 r-cran-sass r-cran-scales r-cran-shape r-cran-shiny r-cran-shinyjs r-cran-snow r-cran-sourcetools r-cran-sparsem r-cran-sparsevctrs r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tzdb r-cran-urca r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml r-cran-zoo r-pkg-team-core-architecture readline-common salmon samtools sgml-base shared-mime-info snakemake sphinx-common systemd systemd-sysv trim-galore unicode-data unzip user-session-migration x11-common xdg-utils xkb-data xml-core xz-utils zip Suggested packages: adwaita-icon-theme-legacy binutils-doc gprofng-gui binutils-gold bzip2-doc cpp-doc gcc-16-locales cpp-16-doc debian-keyring debian-tag2upload-keyring node-fortawesome-fontawesome-free g++-multilib g++-16-multilib gcc-16-doc gcc-multilib manpages-dev autoconf automake libtool flex bison gdb gcc-doc gcc-16-multilib gdb-x86-64-linux-gnu gettext-base git-doc git-email git-gui gitk gitweb git-cvs git-svn libheif-plugin-x265 | libheif-plugin-kvazaar apache2 | lighttpd | httpd alsa-utils libasound2-plugins libboost-doc libboost1.92-doc libboost-atomic1.92-dev libboost-cobalt1.92-dev libboost-chrono1.92-dev libboost-container1.92-dev libboost-context1.92-dev libboost-contract1.92-dev libboost-coroutine1.92-dev libboost-date-time1.92-dev libboost-exception1.92-dev libboost-fiber1.92-dev libboost-filesystem1.92-dev libboost-graph-parallel1.92-dev libboost-graph1.92-dev libboost-iostreams1.92-dev libboost-json1.92-dev libboost-locale1.92-dev libboost-log1.92-dev libboost-math1.92-dev libboost-mpi-python1.92-dev libboost-mpi1.92-dev libboost-nowide1.92-dev libboost-numpy1.92-dev libboost-program-options1.92-dev libboost-python1.92-dev libboost-random1.92-dev libboost-serialization1.92-dev libboost-stacktrace1.92-dev libboost-test1.92-dev libboost-thread1.92-dev libboost-timer1.92-dev libboost-type-erasure1.92-dev libboost-url1.92-dev libboost-wave1.92-dev libboost1.92-tools-dev libmpfrc++-dev libntl-dev libc-devtools glibc-doc colord libasm-java libxz-java libavalon-framework-java libexcalibur-logkit-java cups-common sq | sqop | rsop | gosop | hopenpgp-tools | pgpainless-cli | gpg-sq | gnupg bzr rng-tools gdbm-l10n low-memory-monitor gnutls-bin krb5-doc krb5-user gvfs libheif-plugin-ffmpegdec libheif-plugin-jpegdec libheif-plugin-jpegenc libheif-plugin-j2kdec libheif-plugin-j2kenc libheif-plugin-kvazaar libheif-plugin-rav1e libheif-plugin-svtenc picard-tools libhwloc-contrib-plugins libdom4j-java libjdom1-java libjs-jquery-ui-docs fonts-mathjax-extras fonts-stix libjs-mathjax-doc liblcms2-utils liblog4j1.2-java-doc libmail-java libngs-java-doc pcscd rhino librsvg2-bin lm-sensors libstdc++-16-doc libarchive13t64 libbpf1 libcryptsetup12 libdw1t64 libfdisk1 libfido2-1 libkmod2 libmicrohttpd12t64 libpwquality1 libqrencode4 libtss2-esys-3.0.2-0t64 libtss2-mu-4.0.1-0t64 libtss2-rc0t64 libtss2-tcti-device0t64 tcl8.6 tk8.6 libxerces2-java-doc libxml-commons-resolver1.1-java-doc make-doc r-bioc-megadepth nodejs libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic citation-style-language-styles context ghc groff libjs-katex pandoc-citeproc php ruby texlive-latex-extra texlive-latex-recommended texlive-luatex texlive-xetex wkhtmltopdf ed diffutils-doc perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl python3-doc python3-venv python-attr-doc python-charset-normalizer-doc python-cycler-doc python-python-deeptoolsintervals-doc docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french texlive-latex-base python-fastjsonschema-doc python-git-doc python-jinja2-doc python-jsonschema-doc python-jupyter-core-doc python3-pip python-lxml-doc python-markdown-doc cm-super-minimal dvipng ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 gir1.2-gtk-4.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-pyqt6 python3-sip python3-tornado texlive-extra-utils python-mpmath-doc python3-gmpy2 gfortran python-numpy-doc python3-dev python3-pytest python-pil-doc python3-pandas python3-ipykernel python-pygments-doc ttf-bitstream-vera python-pyparsing-doc python3-cryptography python3-openssl python3-socks python-requests-doc python-scipy-doc python3-azure python3-azure-storage python3-stemmer dvisvgm fonts-freefont-otf imagemagick latexmk node-mathjax-full python3-sphinx-rtd-theme sphinx-doc tex-gyre texlive-fonts-extra texlive-fonts-recommended texlive-plain-generic python-sympy-doc python-tenacity-doc blt tix python-traitlets-doc python3.14-venv python3.14-doc binfmt-support elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-cran-testthat r-bioc-biocstyle r-cran-effects r-cran-leaps r-cran-ordinal r-cran-plotrix r-cran-mvtnorm r-cran-rgl r-cran-rio r-cran-sandwich r-cran-survey r-cran-getopt r-cran-multcomp r-cran-runit r-cran-inline r-cran-tinytest r-cran-rmpi r-cran-rlecuyer readline-doc cwltool sgml-base-doc slurm-client snakemake-doc systemd-container systemd-homed systemd-imds systemd-userdbd systemd-boot systemd-report systemd-resolved systemd-repart polkitd debhelper Recommended packages: librsvg2-common fakeroot sq | sqop | rsop | gosop | hopenpgp-tools | pgpainless-cli | gpg-sq | gnupg libalgorithm-merge-perl less ssh-client libheif-plugin-aomenc | libheif-plugin-rav1e | libheif-plugin-svtenc python3-gi python3-hisat2 bcftools alsa-ucm-conf alsa-topology-conf at-spi2-core curl manpages manpages-dev libfile-fcntllock-perl liblocale-gettext-perl libglib2.0-data xdg-user-dirs libgpg-error-l10n ibus-gtk3 libgtk-3-bin libheif-plugin-x265 libheif-plugin-aomenc libhwloc-plugins node-jquery libjson-xs-perl krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules mesa-vulkan-drivers | vulkan-icd libjs-filesaver node-clipboard texlive-xetex libatk-wrapper-java-jni fonts-dejavu-extra python3-skia-pathops python3-fqdn python3-isoduration python3-json-pointer python3-rfc3339-validator python3-rfc3986-validator python3-rfc3987 python3-uritemplate python3-webcolors python3-bs4 python3-cssselect python3-html5lib python3-gdal python3-pydot python3-pygraphviz python3-olefile python3-pooch python3-boto3 python3-paramiko isympy-common python3-isal r-recommended r-base-dev r-doc-html w3m | www-browser node-highlight.js r-cran-maps r-cran-hexbin r-cran-ggthemes r-cran-ggally r-cran-ggalluvial r-cran-testthat r-cran-cairo r-cran-webshot r-cran-dendextend r-cran-sf r-cran-png r-cran-irdisplay r-cran-processx r-cran-forcats r-cran-palmerpenguins r-cran-rversions r-cran-reticulate r-cran-rsvg r-cran-ggridges cwltool imagemagick python3-yappi python3-azure-storage python3-biopython python3-botocore python3-dropbox python3-flask python3-ftputil python3-irodsclient python3-kubernetes linux-sysctl-defaults systemd-timesyncd | time-daemon systemd-tpm systemd-cryptsetup libbpf1 libcryptsetup12 libkmod2 libnss-systemd libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: adwaita-icon-theme at-spi2-common binutils binutils-common binutils-x86-64-linux-gnu bubblewrap build-essential bzip2 ca-certificates ca-certificates-java coinor-cbc coinor-libcbc3.1 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 cpp cpp-16 cpp-16-x86-64-linux-gnu cpp-x86-64-linux-gnu cutadapt 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 docutils-common dpkg-dev fastp fastqc fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-font-awesome-legacy fonts-glyphicons-halflings fonts-lyx fonts-mathjax g++ g++-16 g++-16-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-16 gcc-16-x86-64-linux-gnu gcc-x86-64-linux-gnu git git-man glycin-loaders glycin-thumbnailers gsettings-desktop-schemas gtk-update-icon-cache hicolor-icon-theme hisat2 java-common javascript-common junit4 libabsl20260526 libaom3 libapache-pom-java libapparmor1 libasan8 libasound2-data libasound2t64 libatk-bridge2.0-0t64 libatk1.0-0t64 libatomic1 libatspi2.0-0t64 libavahi-client3 libavahi-common-data libavahi-common3 libavif16 libbigwig0t64 libbinutils libblas3 libboost-dev libboost-filesystem1.92.0 libboost-iostreams1.92.0 libboost-program-options1.92.0 libboost-regex1.92-dev libboost-regex1.92.0 libboost1.92-dev libbrotli1 libc-dev-bin libc6-dev libcairo-gobject2 libcairo2 libcap2 libcc1-0 libcloudproviders0 libcolord2 libcom-err2 libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libctf-nobfd0 libctf0 libcups2t64 libcurl3t64-gnutls libcurl4-gnutls libcurl4t64 libdatrie1 libdav1d7 libdbus-1-3 libdconf1 libde265-0 libdeflate0 libdpkg-perl libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm2 libedit2 libelf1t64 libepoxy0 liberror-perl libexpat1 libezmorph-java libffi8 libfindbin-libs-perl libfontconfig1 libfreetype6 libfribidi0 libgav1-2 libgbm1 libgcc-16-dev libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgl1 libgl1-mesa-dri libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libglycin-2-0 libgnutls30t64 libgomp1 libgpg-error0 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libgtk-3-0t64 libgtk-3-common libhamcrest-java libharfbuzz-subset0 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libhts3t64 libhtscodecs2 libhtsjdk-java libhwasan0 libhwloc15 libhwy1t64 libice6 libicu78 libidn2-0 libimagequant0 libisal2 libisl23 libitm1 libjansson4 libjaxen-java libjbig0 libjbzip2-java libjemalloc2 libjpeg62-turbo libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables libjs-jquery-datatables-extensions libjs-jquery-metadata libjs-jquery-selectize.js libjs-jquery-tablesorter libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js libjs-sphinxdoc libjs-twitter-bootstrap-datepicker libjson-java libjson-perl libjxl0.11 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm22 liblog4j1.2-java liblsan0 liblua5.4-0 libmbedcrypto16 libmbedtls21 libmbedx509-7 libmpc3 libmpfr6 libncbi-ngs3 libncbi-vdb3 libncurses6 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-gnutls8 libngtcp2-crypto-ossl0 libnlopt1 libnspr4 libnss3 libnuma1 libopenjp2-7 libp11-kit0 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpciaccess0 libpcsclite1 libperl5.42 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.14 libpython3.14-minimal libpython3.14-stdlib libqhull-r8.0 libquadmath0 libraqm0 librav1e0.8 libreadline8t64 librhino-java librsvg2-2 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsframe3 libsharpyuv0 libslf4j-java libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libstaden-read14t64 libstdc++-16-dev libsvtav1enc4 libsystemd-shared libtasn1-6 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libunistring5 libuv1t64 libvulkan1 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2-16 libxom-java libxrandr2 libxrender1 libxres1 libxshmfence1 libxslt1.1 libxss1 libxt6t64 libxtst6 libxxf86vm1 libyaml-0-2 libyuv0 libz3-4 libzopfli1 linux-libc-dev make media-types megadepth mesa-libgallium multiqc ncbi-vdb-data netbase node-bootstrap-sass node-html5shiv node-normalize.css openjdk-25-jre openjdk-25-jre-headless openssl pandoc pandoc-data patch pci.ids perl perl-modules-5.42 pigz piuparts-depends-dummy python-babel-localedata python-matplotlib-data python3 python3-alabaster python3-attr python3-babel python3-brotli python3-certifi python3-chardet python3-charset-normalizer python3-click python3-coloredlogs python3-colormath python3-configargparse python3-connection-pool python3-contourpy python3-cutadapt python3-cycler python3-dateutil python3-datrie python3-decorator python3-deeptools python3-deeptoolsintervals python3-defusedxml python3-dnaio python3-docutils python3-dpath python3-fastjsonschema python3-fonttools python3-git python3-gitdb python3-htseq python3-humanfriendly python3-humanize python3-idna python3-imagesize python3-jinja2 python3-jsonschema python3-jsonschema-specifications python3-jupyter-core python3-kiwisolver python3-linkify-it python3-lxml python3-lz4 python3-lzstring python3-markdown python3-markdown-it python3-markupsafe python3-matplotlib python3-mdurl python3-minimal python3-mpmath python3-nbformat python3-networkx python3-numpy python3-numpy-dev python3-numpydoc python3-packaging python3-pil python3-pil.imagetk python3-plac python3-platformdirs python3-plotly python3-psutil python3-pulp python3-py2bit python3-pyaml-env python3-pybigwig python3-pygments python3-pyparsing python3-pysam python3-pytz python3-referencing python3-requests python3-retry python3-rich python3-rich-click python3-roman-numerals python3-rpds-py python3-scipy python3-smart-open python3-smmap python3-snowballstemmer python3-spectra python3-sphinx python3-stopit python3-sympy python3-tabulate python3-tenacity python3-throttler python3-tk python3-toposort python3-traitlets python3-uc-micro python3-ufolib2 python3-uharfbuzz python3-urllib3 python3-wrapt python3-xopen python3-yaml python3-yte python3-zopfli python3.14 python3.14-minimal python3.14-tk r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-cigarillo r-bioc-delayedarray r-bioc-deseq2 r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-seqinfo r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-tximport r-bioc-ucsc.utils r-bioc-xvector r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh r-cran-bitops r-cran-boot r-cran-broom r-cran-bslib r-cran-cachem r-cran-car r-cran-cardata r-cran-caret r-cran-class r-cran-cli r-cran-clock r-cran-codetools r-cran-colorspace r-cran-colourpicker r-cran-commonmark r-cran-conquer r-cran-corrplot r-cran-cowplot r-cran-cpp11 r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-data.table r-cran-deriv r-cran-diagram r-cran-digest r-cran-doby r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-evaluate r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-foreach r-cran-forecast r-cran-formatr r-cran-formula r-cran-fracdiff r-cran-fs r-cran-futile.logger r-cran-futile.options r-cran-future r-cran-future.apply r-cran-generics r-cran-ggplot2 r-cran-ggpubr r-cran-ggrepel r-cran-ggsci r-cran-ggsignif r-cran-globals r-cran-glue r-cran-gower r-cran-gprofiler2 r-cran-gridextra r-cran-gtable r-cran-hardhat r-cran-highr r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-ipred r-cran-isoband r-cran-iterators r-cran-jquerylib r-cran-jsonlite r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lava r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lme4 r-cran-lmtest r-cran-locfit r-cran-lubridate r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-microbenchmark r-cran-mime r-cran-miniui r-cran-minqa r-cran-modelmetrics r-cran-modelr r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-otel r-cran-parallelly r-cran-pbkrtest r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plotly r-cran-plyr r-cran-polynom r-cran-proc r-cran-prodlim r-cran-progressr r-cran-promises r-cran-proxy r-cran-purrr r-cran-quantreg r-cran-r6 r-cran-rappdirs r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcurl r-cran-rdpack r-cran-recipes r-cran-reformulas r-cran-reshape2 r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstatix r-cran-s7 r-cran-sass r-cran-scales r-cran-shape r-cran-shiny r-cran-shinyjs r-cran-snow r-cran-sourcetools r-cran-sparsem r-cran-sparsevctrs r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tzdb r-cran-urca r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml r-cran-zoo r-pkg-team-core-architecture readline-common salmon samtools sgml-base shared-mime-info snakemake sphinx-common systemd systemd-sysv trim-galore unicode-data unzip user-session-migration x11-common xdg-utils xkb-data xml-core xz-utils zip 0 upgraded, 692 newly installed, 0 to remove and 0 not upgraded. Need to get 729 MB/729 MB of archives. After this operation, 2694 MB of additional disk space will be used. Get:1 /tmp/piuparts-depends-dummy.deb piuparts-depends-dummy all 0.invalid.0 [874 B] Get:2 http://deb.debian.org/debian sid/main amd64 libsystemd-shared amd64 262.1-1 [2792 kB] Get:3 http://deb.debian.org/debian sid/main amd64 systemd amd64 262.1-1 [3477 kB] Get:4 http://deb.debian.org/debian sid/main amd64 systemd-sysv amd64 262.1-1 [41.7 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.9.0-1 [133 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libzopfli1 amd64 1.0.3-3 [106 kB] Get:7 http://deb.debian.org/debian sid/main amd64 pigz amd64 2.8-2 [44.2 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libpython3.14-minimal amd64 3.14.8-1 [902 kB] Get:9 http://deb.debian.org/debian sid/main amd64 python3.14-minimal amd64 3.14.8-1 [2715 kB] Get:10 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.14.7-3 [25.3 kB] Get:11 http://deb.debian.org/debian sid/main amd64 media-types all 14.0.0 [30.8 kB] Get:12 http://deb.debian.org/debian sid/main 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[879 kB] Get:24 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.1-8 [2548 kB] Get:25 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:2.4.6+ds-5 [5139 kB] Get:26 http://deb.debian.org/debian sid/main amd64 bzip2 amd64 1.0.8-6+b2 [40.4 kB] Get:27 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.6.5-1 [1554 kB] Get:28 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20260816 [134 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libdbus-1-3 amd64 1.16.2-8 [184 kB] Get:30 http://deb.debian.org/debian sid/main amd64 dbus-bin amd64 1.16.2-8 [76.8 kB] Get:31 http://deb.debian.org/debian sid/main amd64 dbus-session-bus-common all 1.16.2-8 [49.2 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libapparmor1 amd64 4.1.8-3 [38.8 kB] Get:33 http://deb.debian.org/debian sid/main amd64 dbus-daemon amd64 1.16.2-8 [163 kB] Get:34 http://deb.debian.org/debian sid/main amd64 dbus-system-bus-common all 1.16.2-8 [50.2 kB] Get:35 http://deb.debian.org/debian sid/main amd64 dbus amd64 1.16.2-8 [69.0 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libpam-systemd amd64 262.1-1 [346 kB] Get:37 http://deb.debian.org/debian sid/main amd64 perl-modules-5.42 all 5.42.3-1 [3213 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libgdbm6t64 amd64 1.26-1+b2 [77.7 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4t64 amd64 1.26-1+b2 [52.0 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libperl5.42 amd64 5.42.3-1 [4272 kB] Get:41 http://deb.debian.org/debian sid/main amd64 perl amd64 5.42.3-1 [266 kB] Get:42 http://deb.debian.org/debian sid/main amd64 xz-utils amd64 5.8.4-1 [761 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libcap2 amd64 1:2.78-1+b1 [28.8 kB] Get:44 http://deb.debian.org/debian sid/main amd64 bubblewrap amd64 0.13.1-1 [56.0 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.2.0-4+b1 [312 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.59-1 [293 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.14.3+dfsg-3 [510 kB] Get:48 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-9 [488 kB] Get:49 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-9 [840 kB] Get:50 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.17.1-5 [56.1 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.17.1-5 [132 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.46.4-1+b2 [259 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.11-1+b2 [20.7 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.5-2+b1 [28.2 kB] Get:55 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.17.0-2+b2 [144 kB] Get:56 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.13-1 [346 kB] Get:57 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.13-1 [829 kB] Get:58 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.17.0-2+b2 [115 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.17.0-2+b2 [105 kB] Get:60 http://deb.debian.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b4 [50.7 kB] Get:61 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.12-1+b2 [27.7 kB] Get:62 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.4-3+b1 [543 kB] Get:63 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 16.2.0-3 [10.4 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.90.1-2 [1620 kB] Get:65 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.6.0-0.1 [116 kB] Get:66 http://deb.debian.org/debian sid/main amd64 libde265-0 amd64 1.1.3-1+b1 [219 kB] Get:67 http://deb.debian.org/debian sid/main amd64 libheif-plugin-libde265 amd64 1.23.6-2 [19.6 kB] Get:68 http://deb.debian.org/debian sid/main amd64 libdav1d7 amd64 1.5.4-1 [583 kB] Get:69 http://deb.debian.org/debian sid/main amd64 libheif-plugin-dav1d amd64 1.23.6-2 [22.1 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libheif1 amd64 1.23.6-2 [885 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libhwy1t64 amd64 1.3.0-5.1 [694 kB] Get:72 http://deb.debian.org/debian sid/main amd64 liblcms2-2 amd64 2.19.1-1 [164 kB] Get:73 http://deb.debian.org/debian sid/main amd64 libjxl0.11 amd64 0.11.2-5.1 [1273 kB] Get:74 http://deb.debian.org/debian sid/main amd64 libcairo-gobject2 amd64 1.18.4-3+b1 [129 kB] Get:75 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.17.1-5 [191 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.16-5+b1 [26.2 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.15-2 [75.8 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 12.3.2-2+b2 [513 kB] Get:79 http://deb.debian.org/debian sid/main amd64 libthai-data all 0.1.30-3 [172 kB] Get:80 http://deb.debian.org/debian sid/main amd64 libdatrie1 amd64 0.2.14-2 [39.1 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libthai0 amd64 0.1.30-3 [51.7 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.58.2-1 [233 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.58.2-1 [56.0 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.58.2-1 [35.3 kB] Get:85 http://deb.debian.org/debian sid/main amd64 libxml2-16 amd64 2.15.4+dfsg-1 [683 kB] Get:86 http://deb.debian.org/debian sid/main amd64 librsvg2-2 amd64 2.63.2+dfsg-1 [1836 kB] Get:87 http://deb.debian.org/debian sid/main amd64 glycin-loaders amd64 2.2.3+ds-1 [2951 kB] Get:88 http://deb.debian.org/debian sid/main amd64 libglycin-2-0 amd64 2.2.3+ds-1 [1605 kB] Get:89 http://deb.debian.org/debian sid/main amd64 glycin-thumbnailers amd64 2.2.3+ds-1 [207 kB] Get:90 http://deb.debian.org/debian sid/main amd64 libgdk-pixbuf2.0-common all 2.44.8+dfsg-1 [316 kB] Get:91 http://deb.debian.org/debian sid/main amd64 shared-mime-info amd64 2.4-5+b3 [758 kB] Get:92 http://deb.debian.org/debian sid/main amd64 libgdk-pixbuf-2.0-0 amd64 2.44.8+dfsg-1 [103 kB] Get:93 http://deb.debian.org/debian sid/main amd64 gtk-update-icon-cache amd64 4.24.1+ds-1 [41.9 kB] Get:94 http://deb.debian.org/debian sid/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get:95 http://deb.debian.org/debian sid/main amd64 adwaita-icon-theme all 51.0-1 [493 kB] Get:96 http://deb.debian.org/debian sid/main amd64 at-spi2-common all 2.62.1-1 [171 kB] Get:97 http://deb.debian.org/debian sid/main amd64 libsframe3 amd64 2.47-6 [86.2 kB] Get:98 http://deb.debian.org/debian sid/main amd64 binutils-common amd64 2.47-6 [2686 kB] Get:99 http://deb.debian.org/debian sid/main amd64 libbinutils amd64 2.47-6 [562 kB] Get:100 http://deb.debian.org/debian sid/main amd64 libgprofng0 amd64 2.47-6 [846 kB] Get:101 http://deb.debian.org/debian sid/main amd64 libctf-nobfd0 amd64 2.47-6 [166 kB] Get:102 http://deb.debian.org/debian sid/main amd64 libctf0 amd64 2.47-6 [98.2 kB] Get:103 http://deb.debian.org/debian sid/main amd64 libjansson4 amd64 2.15.1-1 [65.6 kB] Get:104 http://deb.debian.org/debian sid/main amd64 binutils-x86-64-linux-gnu amd64 2.47-6 [1132 kB] Get:105 http://deb.debian.org/debian sid/main amd64 binutils amd64 2.47-6 [288 kB] Get:106 http://deb.debian.org/debian sid/main amd64 libc-dev-bin amd64 2.43-7 [39.7 kB] Get:107 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 7.2.11-1 [2029 kB] Get:108 http://deb.debian.org/debian sid/main amd64 libc6-dev amd64 2.43-7 [2069 kB] Get:109 http://deb.debian.org/debian sid/main amd64 libisl23 amd64 0.28-1 [667 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libmpfr6 amd64 4.2.2-3 [729 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libmpc3 amd64 1.3.1-3 [52.2 kB] Get:112 http://deb.debian.org/debian sid/main amd64 cpp-16-x86-64-linux-gnu amd64 16.2.0-3 [13.7 MB] Get:113 http://deb.debian.org/debian sid/main amd64 cpp-16 amd64 16.2.0-3 [1272 B] Get:114 http://deb.debian.org/debian sid/main amd64 cpp-x86-64-linux-gnu amd64 4:16.1.0-3 [4472 B] Get:115 http://deb.debian.org/debian sid/main amd64 cpp amd64 4:16.1.0-3 [1568 B] Get:116 http://deb.debian.org/debian sid/main amd64 libcc1-0 amd64 16.2.0-3 [46.1 kB] Get:117 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 16.2.0-3 [151 kB] Get:118 http://deb.debian.org/debian sid/main amd64 libitm1 amd64 16.2.0-3 [26.9 kB] Get:119 http://deb.debian.org/debian sid/main amd64 libasan8 amd64 16.2.0-3 [2888 kB] Get:120 http://deb.debian.org/debian sid/main amd64 liblsan0 amd64 16.2.0-3 [1281 kB] Get:121 http://deb.debian.org/debian sid/main amd64 libtsan2 amd64 16.2.0-3 [2574 kB] Get:122 http://deb.debian.org/debian sid/main amd64 libubsan1 amd64 16.2.0-3 [1136 kB] Get:123 http://deb.debian.org/debian sid/main amd64 libhwasan0 amd64 16.2.0-3 [1580 kB] Get:124 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 16.2.0-3 [148 kB] Get:125 http://deb.debian.org/debian sid/main amd64 libgcc-16-dev amd64 16.2.0-3 [2782 kB] Get:126 http://deb.debian.org/debian sid/main amd64 gcc-16-x86-64-linux-gnu amd64 16.2.0-3 [26.6 MB] Get:127 http://deb.debian.org/debian sid/main amd64 gcc-16 amd64 16.2.0-3 [538 kB] Get:128 http://deb.debian.org/debian sid/main amd64 gcc-x86-64-linux-gnu amd64 4:16.1.0-3 [1432 B] Get:129 http://deb.debian.org/debian sid/main amd64 gcc amd64 4:16.1.0-3 [5148 B] Get:130 http://deb.debian.org/debian sid/main amd64 libstdc++-16-dev amd64 16.2.0-3 [2755 kB] Get:131 http://deb.debian.org/debian sid/main amd64 g++-16-x86-64-linux-gnu amd64 16.2.0-3 [15.1 MB] Get:132 http://deb.debian.org/debian sid/main amd64 g++-16 amd64 16.2.0-3 [35.4 kB] Get:133 http://deb.debian.org/debian sid/main amd64 g++-x86-64-linux-gnu amd64 4:16.1.0-3 [1196 B] Get:134 http://deb.debian.org/debian sid/main amd64 g++ amd64 4:16.1.0-3 [1340 B] Get:135 http://deb.debian.org/debian sid/main amd64 make amd64 4.4.1-3 [463 kB] Get:136 http://deb.debian.org/debian sid/main amd64 libdpkg-perl all 1.23.11 [650 kB] Get:137 http://deb.debian.org/debian sid/main amd64 patch amd64 2.8-2 [134 kB] Get:138 http://deb.debian.org/debian sid/main amd64 dpkg-dev all 1.23.11 [1005 kB] Get:139 http://deb.debian.org/debian sid/main amd64 build-essential amd64 12.12 [4624 B] Get:140 http://deb.debian.org/debian sid/main amd64 ca-certificates-java all 20260311 [11.2 kB] Get:141 http://deb.debian.org/debian sid/main amd64 coinor-libcoinutils3v5 amd64 2.11.12+ds-1+b2 [474 kB] Get:142 http://deb.debian.org/debian sid/main amd64 coinor-libosi1v5 amd64 0.108.11+ds-1+b2 [298 kB] Get:143 http://deb.debian.org/debian sid/main amd64 coinor-libclp1 amd64 1.17.10+ds-1+b2 [904 kB] Get:144 http://deb.debian.org/debian sid/main amd64 coinor-libcgl1 amd64 0.60.10+ds-1 [453 kB] Get:145 http://deb.debian.org/debian sid/main amd64 coinor-libcbc3.1 amd64 2.10.13+ds-1 [724 kB] Get:146 http://deb.debian.org/debian sid/main amd64 coinor-cbc amd64 2.10.13+ds-1 [15.3 kB] Get:147 http://deb.debian.org/debian sid/main amd64 python3-xopen all 1.7.0-4 [16.4 kB] Get:148 http://deb.debian.org/debian sid/main amd64 python3-dnaio amd64 1.2.4-1+b2 [83.9 kB] Get:149 http://deb.debian.org/debian sid/main amd64 python3-cutadapt amd64 4.7-2+b5 [204 kB] Get:150 http://deb.debian.org/debian sid/main amd64 cutadapt all 4.7-2 [25.1 kB] Get:151 http://deb.debian.org/debian sid/main amd64 dbus-user-session amd64 1.16.2-8 [49.3 kB] Get:152 http://deb.debian.org/debian sid/main amd64 libdconf1 amd64 51.0-2 [45.3 kB] Get:153 http://deb.debian.org/debian sid/main amd64 dconf-service amd64 51.0-2 [36.3 kB] Get:154 http://deb.debian.org/debian sid/main amd64 dconf-gsettings-backend amd64 51.0-2 [31.3 kB] Get:155 http://deb.debian.org/debian sid/main amd64 java-common all 0.77 [6620 B] Get:156 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:3.1.3-4 [213 kB] Get:157 http://deb.debian.org/debian sid/main amd64 libnspr4 amd64 2:4.40-1 [116 kB] Get:158 http://deb.debian.org/debian sid/main amd64 libnss3 amd64 2:3.131-1 [1549 kB] Get:159 http://deb.debian.org/debian sid/main amd64 libpcsclite1 amd64 2.5.3-1 [56.7 kB] Get:160 http://deb.debian.org/debian sid/main amd64 openjdk-25-jre-headless amd64 25.0.5~7ea-2 [54.0 MB] Get:161 http://deb.debian.org/debian sid/main amd64 default-jre-headless amd64 2:1.25-77 [3012 B] Get:162 http://deb.debian.org/debian sid/main amd64 user-session-migration amd64 0.5.2 [9856 B] Get:163 http://deb.debian.org/debian sid/main amd64 gsettings-desktop-schemas all 51.0-2 [846 kB] Get:164 http://deb.debian.org/debian sid/main amd64 libgtk-3-common all 3.24.52-3 [4928 kB] Get:165 http://deb.debian.org/debian sid/main amd64 libatk1.0-0t64 amd64 2.62.1-1 [51.7 kB] Get:166 http://deb.debian.org/debian sid/main amd64 libxi6 amd64 2:1.8.3-1 [86.4 kB] Get:167 http://deb.debian.org/debian sid/main amd64 libxres1 amd64 2:1.2.1-2 [17.9 kB] Get:168 http://deb.debian.org/debian sid/main amd64 libatspi2.0-0t64 amd64 2.62.1-1 [86.9 kB] Get:169 http://deb.debian.org/debian sid/main amd64 libatk-bridge2.0-0t64 amd64 2.62.1-1 [69.2 kB] Get:170 http://deb.debian.org/debian sid/main amd64 libcloudproviders0 amd64 0.4.1-1 [29.6 kB] Get:171 http://deb.debian.org/debian sid/main amd64 libcolord2 amd64 1.4.8-3 [141 kB] Get:172 http://deb.debian.org/debian sid/main amd64 libavahi-common-data amd64 0.8-18 [113 kB] Get:173 http://deb.debian.org/debian sid/main amd64 libavahi-common3 amd64 0.8-18 [45.2 kB] Get:174 http://deb.debian.org/debian sid/main amd64 libavahi-client3 amd64 0.8-18 [49.2 kB] Get:175 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.4.2-1 [480 kB] Get:176 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.8-5 [109 kB] Get:177 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.26.5-1 [482 kB] Get:178 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.21.0-2+b1 [49.3 kB] Get:179 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.13-1 [1546 kB] Get:180 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.22.1-3 [31.1 kB] Get:181 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.4-1+b2 [19.5 kB] Get:182 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.22.1-3 [79.0 kB] Get:183 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-6+b2 [9348 B] Get:184 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.22.1-3 [335 kB] Get:185 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.22.1-3 [137 kB] Get:186 http://deb.debian.org/debian sid/main amd64 libcups2t64 amd64 2.4.20-1 [268 kB] Get:187 http://deb.debian.org/debian sid/main amd64 libepoxy0 amd64 1.5.10-2+b2 [199 kB] Get:188 http://deb.debian.org/debian sid/main amd64 libwayland-client0 amd64 1.26.0-1 [29.4 kB] Get:189 http://deb.debian.org/debian sid/main amd64 libwayland-cursor0 amd64 1.26.0-1 [11.8 kB] Get:190 http://deb.debian.org/debian sid/main amd64 libwayland-egl1 amd64 1.26.0-1 [5688 B] Get:191 http://deb.debian.org/debian sid/main amd64 libxcomposite1 amd64 1:0.4.6-1+b2 [16.6 kB] Get:192 http://deb.debian.org/debian sid/main amd64 libxfixes3 amd64 1:6.0.0-2+b5 [20.3 kB] Get:193 http://deb.debian.org/debian sid/main amd64 libxcursor1 amd64 1:1.2.3-1+b2 [40.3 kB] Get:194 http://deb.debian.org/debian sid/main amd64 libxdamage1 amd64 1:1.1.7-1+b1 [16.3 kB] Get:195 http://deb.debian.org/debian sid/main amd64 libxinerama1 amd64 2:1.1.4-3+b5 [16.0 kB] Get:196 http://deb.debian.org/debian sid/main amd64 xkb-data all 2.48-1 [841 kB] Get:197 http://deb.debian.org/debian sid/main amd64 libxkbcommon0 amd64 1.13.1-1 [148 kB] Get:198 http://deb.debian.org/debian sid/main amd64 libxrandr2 amd64 2:1.5.4-1+b4 [36.5 kB] Get:199 http://deb.debian.org/debian sid/main amd64 libgtk-3-0t64 amd64 3.24.52-3 [3069 kB] Get:200 http://deb.debian.org/debian sid/main amd64 libglvnd0 amd64 1.7.0-3+b1 [54.3 kB] Get:201 http://deb.debian.org/debian sid/main amd64 libdrm-common all 2.4.134-3 [7860 B] Get:202 http://deb.debian.org/debian sid/main amd64 libdrm2 amd64 2.4.134-3 [38.5 kB] Get:203 http://deb.debian.org/debian sid/main amd64 libdrm-amdgpu1 amd64 2.4.134-3 [23.3 kB] Get:204 http://deb.debian.org/debian sid/main amd64 pci.ids all 0.0~2026.09.23-1 [287 kB] Get:205 http://deb.debian.org/debian sid/main amd64 libpciaccess0 amd64 0.19-2 [18.5 kB] Get:206 http://deb.debian.org/debian sid/main amd64 libdrm-intel1 amd64 2.4.134-3 [64.2 kB] Get:207 http://deb.debian.org/debian sid/main amd64 libelf1t64 amd64 0.196-1 [61.2 kB] Get:208 http://deb.debian.org/debian sid/main amd64 libedit2 amd64 3.1-20260512-1 [93.6 kB] Get:209 http://deb.debian.org/debian sid/main amd64 libz3-4 amd64 4.13.3-1.1 [8644 kB] Get:210 http://deb.debian.org/debian sid/main amd64 libllvm22 amd64 1:22.1.8-3 [29.4 MB] Get:211 http://deb.debian.org/debian sid/main amd64 libsensors-config all 1:3.6.2-2 [16.2 kB] Get:212 http://deb.debian.org/debian sid/main amd64 libsensors5 amd64 1:3.6.2-2+b2 [37.2 kB] Get:213 http://deb.debian.org/debian sid/main amd64 libx11-xcb1 amd64 2:1.8.13-1 [250 kB] Get:214 http://deb.debian.org/debian sid/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b2 [107 kB] Get:215 http://deb.debian.org/debian sid/main amd64 libxcb-present0 amd64 1.17.0-2+b2 [106 kB] Get:216 http://deb.debian.org/debian sid/main amd64 libxcb-randr0 amd64 1.17.0-2+b2 [117 kB] Get:217 http://deb.debian.org/debian sid/main amd64 libxcb-sync1 amd64 1.17.0-2+b2 [109 kB] Get:218 http://deb.debian.org/debian sid/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b2 [109 kB] Get:219 http://deb.debian.org/debian sid/main amd64 libxshmfence1 amd64 1.3.3-1+b2 [11.2 kB] Get:220 http://deb.debian.org/debian sid/main amd64 mesa-libgallium amd64 26.2.5-1 [11.9 MB] Get:221 http://deb.debian.org/debian sid/main amd64 libgbm1 amd64 26.2.5-1 [57.0 kB] Get:222 http://deb.debian.org/debian sid/main amd64 libvulkan1 amd64 1.4.363.0-1 [173 kB] Get:223 http://deb.debian.org/debian sid/main amd64 libgl1-mesa-dri amd64 26.2.5-1 [37.8 kB] Get:224 http://deb.debian.org/debian sid/main amd64 libxcb-glx0 amd64 1.17.0-2+b2 [122 kB] Get:225 http://deb.debian.org/debian sid/main amd64 libxxf86vm1 amd64 1:1.1.4-2+b1 [20.2 kB] Get:226 http://deb.debian.org/debian sid/main amd64 libglx-mesa0 amd64 26.2.5-1 [132 kB] Get:227 http://deb.debian.org/debian sid/main amd64 libglx0 amd64 1.7.0-3+b1 [34.9 kB] Get:228 http://deb.debian.org/debian sid/main amd64 libgl1 amd64 1.7.0-3+b1 [87.1 kB] Get:229 http://deb.debian.org/debian sid/main amd64 libasound2-data all 1.2.16.1-2 [19.4 kB] Get:230 http://deb.debian.org/debian sid/main amd64 libasound2t64 amd64 1.2.16.1-2 [417 kB] Get:231 http://deb.debian.org/debian sid/main amd64 libgif7 amd64 6.1.3-1 [46.1 kB] Get:232 http://deb.debian.org/debian sid/main amd64 x11-common all 1:7.7+26 [217 kB] Get:233 http://deb.debian.org/debian sid/main amd64 libxtst6 amd64 2:1.2.5-1+b2 [26.2 kB] Get:234 http://deb.debian.org/debian sid/main amd64 openjdk-25-jre amd64 25.0.5~7ea-2 [209 kB] Get:235 http://deb.debian.org/debian sid/main amd64 default-jre amd64 2:1.25-77 [1028 B] Get:236 http://deb.debian.org/debian sid/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Get:237 http://deb.debian.org/debian sid/main amd64 xml-core all 0.21 [19.0 kB] Get:238 http://deb.debian.org/debian sid/main amd64 docutils-common all 0.23+dfsg-2 [124 kB] Get:239 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.25-1 [48.0 kB] Get:240 http://deb.debian.org/debian sid/main amd64 libisal2 amd64 2.31.1-3 [117 kB] Get:241 http://deb.debian.org/debian sid/main amd64 fastp amd64 1.0.1+dfsg-1 [225 kB] Get:242 http://deb.debian.org/debian sid/main amd64 libcommons-math3-java all 3.6.1-4 [2040 kB] Get:243 http://deb.debian.org/debian sid/main amd64 libjbzip2-java all 0.9.1-8 [42.7 kB] Get:244 http://deb.debian.org/debian sid/main amd64 libapache-pom-java all 33-2 [5852 B] Get:245 http://deb.debian.org/debian sid/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:246 http://deb.debian.org/debian sid/main amd64 libcommons-codec-java all 1.22.1-1 [346 kB] Get:247 http://deb.debian.org/debian sid/main amd64 libcommons-io-java all 2.22.0-1 [570 kB] Get:248 http://deb.debian.org/debian sid/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get:249 http://deb.debian.org/debian sid/main amd64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Get:250 http://deb.debian.org/debian sid/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:251 http://deb.debian.org/debian sid/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get:252 http://deb.debian.org/debian sid/main amd64 junit4 all 4.13.2-6 [350 kB] Get:253 http://deb.debian.org/debian sid/main amd64 libcommons-collections3-java all 3.2.2-4 [531 kB] Get:254 http://deb.debian.org/debian sid/main amd64 libcommons-beanutils-java all 1.10.1-1.1 [231 kB] Get:255 http://deb.debian.org/debian sid/main amd64 libcommons-collections4-java all 4.6.0-1 [835 kB] Get:256 http://deb.debian.org/debian sid/main amd64 libcommons-lang3-java all 3.20.0-1 [679 kB] Get:257 http://deb.debian.org/debian sid/main amd64 libezmorph-java all 1.0.6-4 [75.9 kB] Get:258 http://deb.debian.org/debian sid/main amd64 liblog4j1.2-java all 1.2.17-11 [444 kB] Get:259 http://deb.debian.org/debian sid/main amd64 libslf4j-java all 1.7.36-1 [140 kB] Get:260 http://deb.debian.org/debian sid/main amd64 libjaxen-java all 1.2.0-1 [214 kB] Get:261 http://deb.debian.org/debian sid/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get:262 http://deb.debian.org/debian sid/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get:263 http://deb.debian.org/debian sid/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get:264 http://deb.debian.org/debian sid/main amd64 libxom-java all 1.4.6-2 [177 kB] Get:265 http://deb.debian.org/debian sid/main amd64 libjson-java all 3.2.0+dfsg-2 [142 kB] Get:266 http://deb.debian.org/debian sid/main amd64 libmbedcrypto16 amd64 3.6.7-3 [367 kB] Get:267 http://deb.debian.org/debian sid/main amd64 libmbedx509-7 amd64 3.6.7-3 [157 kB] Get:268 http://deb.debian.org/debian sid/main amd64 libmbedtls21 amd64 3.6.7-3 [250 kB] Get:269 http://deb.debian.org/debian sid/main amd64 ncbi-vdb-data all 3.4.1+dfsg-1 [86.1 kB] Get:270 http://deb.debian.org/debian sid/main amd64 libncbi-vdb3 amd64 3.4.1+dfsg-1 [1260 kB] Get:271 http://deb.debian.org/debian sid/main amd64 libncbi-ngs3 amd64 3.4.1+dfsg-2 [162 kB] Get:272 http://deb.debian.org/debian sid/main amd64 libngs-jni amd64 3.4.1+dfsg-2 [26.3 kB] Get:273 http://deb.debian.org/debian sid/main amd64 libngs-java amd64 3.4.1+dfsg-2 [113 kB] Get:274 http://deb.debian.org/debian sid/main amd64 librhino-java all 1.7.15.1-0.1 [1388 kB] Get:275 http://deb.debian.org/debian sid/main amd64 libsnappy1v5 amd64 1.3.1-3 [32.1 kB] Get:276 http://deb.debian.org/debian sid/main amd64 libsnappy-jni amd64 1.1.10.8-1 [6548 B] Get:277 http://deb.debian.org/debian sid/main amd64 libsnappy-java all 1.1.10.8-1 [87.8 kB] Get:278 http://deb.debian.org/debian sid/main amd64 libhtsjdk-java all 5.0.0+dfsg-2 [1930 kB] Get:279 http://deb.debian.org/debian sid/main amd64 libfindbin-libs-perl all 4.0.4-1 [32.3 kB] Get:280 http://deb.debian.org/debian sid/main amd64 fastqc all 0.12.1+dfsg-4 [398 kB] Get:281 http://deb.debian.org/debian sid/main amd64 fonts-font-awesome-legacy all 6-4 [1547 kB] Get:282 http://deb.debian.org/debian sid/main amd64 fonts-font-awesome all 7.3.0+dfsg-1 [677 kB] Get:283 http://deb.debian.org/debian sid/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-7 [163 kB] Get:284 http://deb.debian.org/debian sid/main amd64 fonts-lyx all 2.5.3-2 [190 kB] Get:285 http://deb.debian.org/debian sid/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get:286 http://deb.debian.org/debian sid/main amd64 libnghttp3-9 amd64 1.17.0-1 [68.1 kB] Get:287 http://deb.debian.org/debian sid/main amd64 libngtcp2-16 amd64 1.24.0-1 [145 kB] Get:288 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-12 [18.4 kB] Get:289 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-12 [59.4 kB] Get:290 http://deb.debian.org/debian sid/main amd64 libldap2 amd64 2.6.14+dfsg-2 [200 kB] Get:291 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.70.0-1 [92.7 kB] Get:292 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-gnutls8 amd64 1.24.0-1 [23.9 kB] Get:293 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.23.3-1 [61.7 kB] Get:294 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.1-6 [253 kB] Get:295 http://deb.debian.org/debian sid/main amd64 libcurl4-gnutls amd64 8.23.0-1 [463 kB] Get:296 http://deb.debian.org/debian sid/main amd64 liberror-perl all 0.17030-1 [26.9 kB] Get:297 http://deb.debian.org/debian sid/main amd64 git-man all 1:2.55.0-1 [2381 kB] Get:298 http://deb.debian.org/debian sid/main amd64 git amd64 1:2.55.0-1 [9658 kB] Get:299 http://deb.debian.org/debian sid/main amd64 hisat2 amd64 2.2.1-5+b4 [3832 kB] Get:300 http://deb.debian.org/debian sid/main amd64 javascript-common all 12+nmu1 [4864 B] Get:301 http://deb.debian.org/debian sid/main amd64 libabsl20260526 amd64 20260526.0-2+b1 [584 kB] Get:302 http://deb.debian.org/debian sid/main amd64 libaom3 amd64 3.14.1-1 [1923 kB] Get:303 http://deb.debian.org/debian sid/main amd64 libgav1-2 amd64 0.20.0-2+b2 [372 kB] Get:304 http://deb.debian.org/debian sid/main amd64 librav1e0.8 amd64 0.8.1-12 [970 kB] Get:305 http://deb.debian.org/debian sid/main amd64 libsvtav1enc4 amd64 4.2.0+dfsg-1 [2492 kB] Get:306 http://deb.debian.org/debian sid/main amd64 libyuv0 amd64 0.0.1974.20261008-1 [195 kB] Get:307 http://deb.debian.org/debian sid/main amd64 libavif16 amd64 1.4.2-1 [147 kB] Get:308 http://deb.debian.org/debian sid/main amd64 libcurl3t64-gnutls amd64 8.23.0-1 [18.0 kB] Get:309 http://deb.debian.org/debian sid/main amd64 libbigwig0t64 amd64 0.4.8+dfsg-3+b1 [29.8 kB] Get:310 http://deb.debian.org/debian sid/main amd64 libboost-regex1.92.0 amd64 1.92.0-4 [320 kB] Get:311 http://deb.debian.org/debian sid/main amd64 libboost-regex1.92-dev amd64 1.92.0-4 [339 kB] Get:312 http://deb.debian.org/debian sid/main amd64 libboost1.92-dev amd64 1.92.0-4 [11.6 MB] Get:313 http://deb.debian.org/debian sid/main amd64 libboost-dev amd64 1.92.0.1 [3260 B] Get:314 http://deb.debian.org/debian sid/main amd64 libboost-filesystem1.92.0 amd64 1.92.0-4 [294 kB] Get:315 http://deb.debian.org/debian sid/main amd64 libboost-iostreams1.92.0 amd64 1.92.0-4 [248 kB] Get:316 http://deb.debian.org/debian sid/main amd64 libboost-program-options1.92.0 amd64 1.92.0-4 [344 kB] Get:317 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-ossl0 amd64 1.24.0-1 [26.5 kB] Get:318 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.23.0-1 [469 kB] Get:319 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.61-5 [93.1 kB] Get:320 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.12.4-2 [936 kB] Get:321 http://deb.debian.org/debian sid/main amd64 libharfbuzz-subset0 amd64 12.3.2-2+b2 [574 kB] Get:322 http://deb.debian.org/debian sid/main amd64 libhtscodecs2 amd64 1.6.7-1 [102 kB] Get:323 http://deb.debian.org/debian sid/main amd64 libhts3t64 amd64 1.24-3 [506 kB] Get:324 http://deb.debian.org/debian sid/main amd64 libhwloc15 amd64 2.15.0-2 [178 kB] Get:325 http://deb.debian.org/debian sid/main amd64 libice6 amd64 2:1.1.1-1+b2 [66.8 kB] Get:326 http://deb.debian.org/debian sid/main amd64 libicu78 amd64 78.3-2 [10.0 MB] Get:327 http://deb.debian.org/debian sid/main amd64 libimagequant0 amd64 4.4.1-1+b2 [255 kB] Get:328 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b3 [32.2 kB] Get:329 http://deb.debian.org/debian sid/main amd64 libjemalloc2 amd64 5.3.1-2 [302 kB] Get:330 http://deb.debian.org/debian sid/main amd64 libjs-bootstrap all 3.4.1+dfsg-7 [173 kB] Get:331 http://deb.debian.org/debian sid/main amd64 libjs-popper.js all 1.16.1+ds-7 [52.3 kB] Get:332 http://deb.debian.org/debian sid/main amd64 libjs-bootstrap4 all 4.6.2+dfsg-3 [485 kB] Get:333 http://deb.debian.org/debian sid/main amd64 libjs-d3 all 3.5.17-4 [132 kB] Get:334 http://deb.debian.org/debian sid/main amd64 libjs-es5-shim all 4.6.7-2 [47.4 kB] Get:335 http://deb.debian.org/debian sid/main amd64 libjs-highlight.js all 10.7.3+dfsg-6 [177 kB] Get:336 http://deb.debian.org/debian sid/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1 [319 kB] Get:337 http://deb.debian.org/debian sid/main amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [144 kB] Get:338 http://deb.debian.org/debian sid/main amd64 libjs-jquery-datatables-extensions all 0.0+git20150910.28fd64e+dfsg-5 [648 kB] Get:339 http://deb.debian.org/debian sid/main amd64 libjs-jquery-metadata all 12-4 [6532 B] Get:340 http://deb.debian.org/debian sid/main amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.2 kB] Get:341 http://deb.debian.org/debian sid/main amd64 libjs-microplugin.js all 0.0.3+dfsg-2 [4008 B] Get:342 http://deb.debian.org/debian sid/main amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [52.1 kB] Get:343 http://deb.debian.org/debian sid/main amd64 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-5 [184 kB] Get:344 http://deb.debian.org/debian sid/main amd64 libjs-jquery-ui all 1.14.2+dfsg-1 [245 kB] Get:345 http://deb.debian.org/debian sid/main amd64 libjs-json all 0~20221030+~1.0.8-1 [20.0 kB] Get:346 http://deb.debian.org/debian sid/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get:347 http://deb.debian.org/debian sid/main amd64 libjs-modernizr all 3.13.0-0.1 [191 kB] Get:348 http://deb.debian.org/debian sid/main amd64 libjs-prettify all 2015.12.04+dfsg-3 [42.0 kB] Get:349 http://deb.debian.org/debian sid/main amd64 libjs-sphinxdoc all 9.1.0-9 [46.3 kB] Get:350 http://deb.debian.org/debian sid/main amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [32.1 kB] Get:351 http://deb.debian.org/debian sid/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get:352 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.2.0+ds-1 [203 kB] Get:353 http://deb.debian.org/debian sid/main amd64 liblua5.4-0 amd64 5.4.9-1 [152 kB] Get:354 http://deb.debian.org/debian sid/main amd64 libncurses6 amd64 6.6+20260608-2 [107 kB] Get:355 http://deb.debian.org/debian sid/main amd64 libnlopt1 amd64 2.11.0-2 [183 kB] Get:356 http://deb.debian.org/debian sid/main amd64 libnuma1 amd64 2.0.19-1+b2 [22.0 kB] Get:357 http://deb.debian.org/debian sid/main amd64 libopenjp2-7 amd64 2.5.4-1.1 [205 kB] Get:358 http://deb.debian.org/debian sid/main amd64 libpaper2 amd64 2.2.5-0.4 [16.6 kB] Get:359 http://deb.debian.org/debian sid/main amd64 libpaper-utils amd64 2.2.5-0.4 [15.8 kB] Get:360 http://deb.debian.org/debian sid/main amd64 libpython3.14 amd64 3.14.8-1 [2528 kB] Get:361 http://deb.debian.org/debian sid/main amd64 libqhull-r8.0 amd64 2020.2-9 [248 kB] Get:362 http://deb.debian.org/debian sid/main amd64 libraqm0 amd64 0.10.5-1 [13.6 kB] Get:363 http://deb.debian.org/debian sid/main amd64 libsm6 amd64 2:1.2.6-1+b2 [37.9 kB] Get:364 http://deb.debian.org/debian sid/main amd64 libstaden-read14t64 amd64 1.15.1-1 [271 kB] Get:365 http://deb.debian.org/debian sid/main amd64 libtbbbind-2-5 amd64 2023.1.0-3 [13.2 kB] Get:366 http://deb.debian.org/debian sid/main amd64 libtbbmalloc2 amd64 2023.1.0-3 [51.0 kB] Get:367 http://deb.debian.org/debian sid/main amd64 libtbb12 amd64 2023.1.0-3 [101 kB] Get:368 http://deb.debian.org/debian sid/main amd64 libtcl8.6 amd64 8.6.18+dfsg-1 [1053 kB] Get:369 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.6.0-0.1 [349 kB] Get:370 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.7.2-1 [383 kB] Get:371 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.7+ds-1 [10.0 kB] Get:372 http://deb.debian.org/debian sid/main amd64 libtirpc3t64 amd64 1.3.7+ds-1 [82.9 kB] Get:373 http://deb.debian.org/debian sid/main amd64 libxft2 amd64 2.3.6-1+b5 [54.8 kB] Get:374 http://deb.debian.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1+b4 [17.0 kB] Get:375 http://deb.debian.org/debian sid/main amd64 libtk8.6 amd64 8.6.18-1 [801 kB] Get:376 http://deb.debian.org/debian sid/main amd64 libuv1t64 amd64 1.53.0-1 [162 kB] Get:377 http://deb.debian.org/debian sid/main amd64 libwebpdemux2 amd64 1.6.0-0.1 [114 kB] Get:378 http://deb.debian.org/debian sid/main amd64 libwebpmux3 amd64 1.6.0-0.1 [127 kB] Get:379 http://deb.debian.org/debian sid/main amd64 libxslt1.1 amd64 1.1.45-0.1 [158 kB] Get:380 http://deb.debian.org/debian sid/main amd64 libxt6t64 amd64 1:1.2.1-1.3+b2 [191 kB] Get:381 http://deb.debian.org/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-2+b1 [53.8 kB] Get:382 http://deb.debian.org/debian sid/main amd64 megadepth amd64 1.2.0-5+b1 [113 kB] Get:383 http://deb.debian.org/debian sid/main amd64 python3-click all 8.3.3-3 [107 kB] Get:384 http://deb.debian.org/debian sid/main amd64 python3-humanfriendly all 10.0-7 [84.9 kB] Get:385 http://deb.debian.org/debian sid/main amd64 python3-coloredlogs all 15.0.1-2 [47.9 kB] Get:386 http://deb.debian.org/debian sid/main amd64 python3-markupsafe amd64 3.0.3-2+b1 [13.7 kB] Get:387 http://deb.debian.org/debian sid/main amd64 python3-jinja2 all 3.1.6-4 [106 kB] Get:388 http://deb.debian.org/debian sid/main amd64 python3-lzstring all 1.0.4-3 [5544 B] Get:389 http://deb.debian.org/debian sid/main amd64 python3-markdown all 3.10.3-1 [88.0 kB] Get:390 http://deb.debian.org/debian sid/main amd64 python-matplotlib-data all 3.10.9+dfsg1-2 [2734 kB] Get:391 http://deb.debian.org/debian sid/main amd64 python3-dateutil all 2.9.0-5 [78.7 kB] Get:392 http://deb.debian.org/debian sid/main amd64 python3-pil amd64 12.3.0-1+b1 [555 kB] Get:393 http://deb.debian.org/debian sid/main amd64 python3.14-tk amd64 3.14.8-1 [108 kB] Get:394 http://deb.debian.org/debian sid/main amd64 python3-tk amd64 3.14.7-3 [8472 B] Get:395 http://deb.debian.org/debian sid/main amd64 python3-pil.imagetk amd64 12.3.0-1+b1 [83.6 kB] Get:396 http://deb.debian.org/debian sid/main amd64 python3-pyparsing all 3.3.3-2 [168 kB] Get:397 http://deb.debian.org/debian sid/main amd64 python3-contourpy amd64 1.3.3-2+b1 [228 kB] Get:398 http://deb.debian.org/debian sid/main amd64 python3-cycler all 0.12.1-3 [9112 B] Get:399 http://deb.debian.org/debian sid/main amd64 python3-brotli amd64 1.2.0-4+b1 [317 kB] Get:400 http://deb.debian.org/debian sid/main amd64 python3-lxml amd64 6.1.3-1 [1527 kB] Get:401 http://deb.debian.org/debian sid/main amd64 python3-lz4 amd64 4.4.5+dfsg-1+b1 [26.1 kB] Get:402 http://deb.debian.org/debian sid/main amd64 python3-decorator all 5.3.1-1 [33.3 kB] Get:403 http://deb.debian.org/debian sid/main amd64 python3-scipy amd64 1.17.1-5+b1 [16.0 MB] Get:404 http://deb.debian.org/debian sid/main amd64 python3-mpmath all 1.4.1-4 [448 kB] Get:405 http://deb.debian.org/debian sid/main amd64 python3-sympy all 1.14.0-6 [4226 kB] Get:406 http://deb.debian.org/debian sid/main amd64 python3-attr all 26.1.0-1 [72.2 kB] Get:407 http://deb.debian.org/debian sid/main amd64 python3-ufolib2 all 0.18.1+dfsg1-2 [32.3 kB] Get:408 http://deb.debian.org/debian sid/main amd64 python3-uharfbuzz amd64 0.53.3-1+b1 [219 kB] Get:409 http://deb.debian.org/debian sid/main amd64 python3-zopfli amd64 0.4.3-2 [10.8 kB] Get:410 http://deb.debian.org/debian sid/main amd64 unicode-data all 17.0.0-2 [9354 kB] Get:411 http://deb.debian.org/debian sid/main amd64 python3-fonttools amd64 4.65.0-1 [1513 kB] Get:412 http://deb.debian.org/debian sid/main amd64 python3-kiwisolver amd64 1.5.1-1 [65.4 kB] Get:413 http://deb.debian.org/debian sid/main amd64 python3-packaging all 26.2-3 [84.3 kB] Get:414 http://deb.debian.org/debian sid/main amd64 python3-matplotlib amd64 3.10.9+dfsg1-2 [22.7 MB] Get:415 http://deb.debian.org/debian sid/main amd64 python3-certifi all 2026.7.22+ds-1 [9928 B] Get:416 http://deb.debian.org/debian sid/main amd64 python3-charset-normalizer amd64 3.4.7-2+b1 [190 kB] Get:417 http://deb.debian.org/debian sid/main amd64 python3-idna all 3.20-1 [45.8 kB] Get:418 http://deb.debian.org/debian sid/main amd64 python3-urllib3 all 2.8.0-2 [125 kB] Get:419 http://deb.debian.org/debian sid/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get:420 http://deb.debian.org/debian sid/main amd64 python3-requests all 2.34.2-1 [77.6 kB] Get:421 http://deb.debian.org/debian sid/main amd64 python3-mdurl all 0.1.2-2 [9108 B] Get:422 http://deb.debian.org/debian sid/main amd64 python3-uc-micro all 2.0.0-1 [6028 B] Get:423 http://deb.debian.org/debian sid/main amd64 python3-linkify-it all 2.2.0-1 [20.8 kB] Get:424 http://deb.debian.org/debian sid/main amd64 python3-markdown-it all 4.2.0-4 [63.8 kB] Get:425 http://deb.debian.org/debian sid/main amd64 python3-pygments all 2.20.0+dfsg-2 [850 kB] Get:426 http://deb.debian.org/debian sid/main amd64 python3-rich all 15.0.0-2 [210 kB] Get:427 http://deb.debian.org/debian sid/main amd64 python3-networkx all 3.4.2-6 [24.1 MB] Get:428 http://deb.debian.org/debian sid/main amd64 python3-colormath all 3.0.0-4 [34.7 kB] Get:429 http://deb.debian.org/debian sid/main amd64 python3-spectra all 0.1.0-2 [16.7 kB] Get:430 http://deb.debian.org/debian sid/main amd64 python3-yaml amd64 6.0.3-1+b1 [138 kB] Get:431 http://deb.debian.org/debian sid/main amd64 python3-humanize all 4.16.0-1 [56.2 kB] Get:432 http://deb.debian.org/debian sid/main amd64 python3-pytz all 2026.5-1 [34.5 kB] Get:433 http://deb.debian.org/debian sid/main amd64 python3-fastjsonschema all 2.22.1-1 [24.0 kB] Get:434 http://deb.debian.org/debian sid/main amd64 python3-rpds-py amd64 0.30.0-2+b1 [249 kB] Get:435 http://deb.debian.org/debian sid/main amd64 python3-referencing all 0.37.0+~2025.1.1-3 [24.1 kB] Get:436 http://deb.debian.org/debian sid/main amd64 python3-jsonschema-specifications all 2025.9.1-1 [9112 B] Get:437 http://deb.debian.org/debian sid/main amd64 python3-jsonschema all 4.26.0-3 [74.6 kB] Get:438 http://deb.debian.org/debian sid/main amd64 python3-platformdirs all 4.11.9-1 [19.7 kB] Get:439 http://deb.debian.org/debian sid/main amd64 python3-traitlets all 5.16.1-1 [71.4 kB] Get:440 http://deb.debian.org/debian sid/main amd64 python3-jupyter-core all 5.9.1-1 [36.5 kB] Get:441 http://deb.debian.org/debian sid/main amd64 python3-nbformat all 5.10.4-3 [43.0 kB] Get:442 http://deb.debian.org/debian sid/main amd64 python3-tenacity all 9.1.4-2 [45.9 kB] Get:443 http://deb.debian.org/debian sid/main amd64 python3-plotly all 5.20.0+dfsg-1.1 [2726 kB] Get:444 http://deb.debian.org/debian sid/main amd64 python3-pyaml-env all 1.2.1-2 [9032 B] Get:445 http://deb.debian.org/debian sid/main amd64 python3-rich-click all 1.9.9-1 [60.0 kB] Get:446 http://deb.debian.org/debian sid/main amd64 multiqc all 1.21+dfsg-4 [781 kB] Get:447 http://deb.debian.org/debian sid/main amd64 node-bootstrap-sass all 3.4.3-2 [186 kB] Get:448 http://deb.debian.org/debian sid/main amd64 node-html5shiv all 3.7.3+dfsg-5 [13.2 kB] Get:449 http://deb.debian.org/debian sid/main amd64 node-normalize.css all 8.0.1-5.1 [12.4 kB] Get:450 http://deb.debian.org/debian sid/main amd64 pandoc-data all 3.11-1 [536 kB] Get:451 http://deb.debian.org/debian sid/main amd64 pandoc amd64 3.11-1 [29.0 MB] Get:452 http://deb.debian.org/debian sid/main amd64 python-babel-localedata all 2.18.0+git2026-08-12-3 [6375 kB] Get:453 http://deb.debian.org/debian sid/main amd64 python3-alabaster all 1.0.0-2 [20.4 kB] Get:454 http://deb.debian.org/debian sid/main amd64 python3-babel all 2.18.0+git2026-08-12-3 [120 kB] Get:455 http://deb.debian.org/debian sid/main amd64 python3-configargparse all 1.7-4 [31.3 kB] Get:456 http://deb.debian.org/debian sid/main amd64 python3-connection-pool all 0.0.3-2 [5584 B] Get:457 http://deb.debian.org/debian sid/main amd64 python3-datrie amd64 0.8.3-2+b2 [131 kB] Get:458 http://deb.debian.org/debian sid/main amd64 python3-deeptoolsintervals amd64 0.1.9-3+b13 [53.4 kB] Get:459 http://deb.debian.org/debian sid/main amd64 python3-defusedxml all 0.7.1-3 [43.4 kB] Get:460 http://deb.debian.org/debian sid/main amd64 sphinx-common all 9.1.0-9 [700 kB] Get:461 http://deb.debian.org/debian sid/main amd64 python3-roman-numerals all 4.1.0-1 [9196 B] Get:462 http://deb.debian.org/debian sid/main amd64 python3-docutils all 0.23+dfsg-2 [433 kB] Get:463 http://deb.debian.org/debian sid/main amd64 python3-imagesize all 2.0.1-1 [14.9 kB] Get:464 http://deb.debian.org/debian sid/main amd64 python3-snowballstemmer all 3.1.1-1 [61.9 kB] Get:465 http://deb.debian.org/debian sid/main amd64 python3-sphinx all 9.1.0-9 [504 kB] Get:466 http://deb.debian.org/debian sid/main amd64 python3-numpydoc all 1.9.0-2 [52.4 kB] Get:467 http://deb.debian.org/debian sid/main amd64 python3-py2bit amd64 0.3.3-1+b3 [21.5 kB] Get:468 http://deb.debian.org/debian sid/main amd64 python3-pybigwig amd64 0.3.25+dfsg-1+b1 [41.2 kB] Get:469 http://deb.debian.org/debian sid/main amd64 python3-pysam amd64 0.24.1+ds-2 [1957 kB] Get:470 http://deb.debian.org/debian sid/main amd64 python3-deeptools all 3.5.6+dfsg-1 [150 kB] Get:471 http://deb.debian.org/debian sid/main amd64 python3-dpath all 2.2.0-2 [20.1 kB] Get:472 http://deb.debian.org/debian sid/main amd64 python3-smmap all 6.0.0-2 [20.1 kB] Get:473 http://deb.debian.org/debian sid/main amd64 python3-gitdb all 4.0.12-2 [45.5 kB] Get:474 http://deb.debian.org/debian sid/main amd64 python3-git all 3.2.1-1 [164 kB] Get:475 http://deb.debian.org/debian sid/main amd64 python3-htseq amd64 2.0.9+dfsg-1+b4 [317 kB] Get:476 http://deb.debian.org/debian sid/main amd64 python3-plac all 1.4.5-3 [87.0 kB] Get:477 http://deb.debian.org/debian sid/main amd64 python3-psutil amd64 7.2.2-2 [154 kB] Get:478 http://deb.debian.org/debian sid/main amd64 python3-pulp all 2.7.0+dfsg-5 [71.7 kB] Get:479 http://deb.debian.org/debian sid/main amd64 python3-retry all 0.9.2-5 [7256 B] Get:480 http://deb.debian.org/debian sid/main amd64 python3-wrapt amd64 2.3.0-1 [94.3 kB] Get:481 http://deb.debian.org/debian sid/main amd64 python3-smart-open all 7.5.1-2 [67.8 kB] Get:482 http://deb.debian.org/debian sid/main amd64 python3-stopit all 1.1.2-4 [13.0 kB] Get:483 http://deb.debian.org/debian sid/main amd64 python3-tabulate all 0.10.0-1 [51.2 kB] Get:484 http://deb.debian.org/debian sid/main amd64 python3-throttler all 1.2.3-1 [8600 B] Get:485 http://deb.debian.org/debian sid/main amd64 python3-toposort all 1.10-2 [7336 B] Get:486 http://deb.debian.org/debian sid/main amd64 python3-yte all 1.5.4-1 [13.6 kB] Get:487 http://deb.debian.org/debian sid/main amd64 zip amd64 3.0-16 [239 kB] Get:488 http://deb.debian.org/debian sid/main amd64 unzip amd64 6.0-31 [176 kB] Get:489 http://deb.debian.org/debian sid/main amd64 xdg-utils all 1.2.1-2 [75.8 kB] Get:490 http://deb.debian.org/debian sid/main amd64 r-base-core amd64 4.6.1-9 [28.4 MB] Get:491 http://deb.debian.org/debian sid/main amd64 r-cran-generics all 0.1.4-1 [84.2 kB] Get:492 http://deb.debian.org/debian sid/main amd64 r-pkg-team-core-architecture amd64 20260707 [4764 B] Get:493 http://deb.debian.org/debian sid/main amd64 r-bioc-biocgenerics all 0.58.1-2 [649 kB] Get:494 http://deb.debian.org/debian sid/main amd64 r-bioc-biobase amd64 2.72.0-1 [2320 kB] Get:495 http://deb.debian.org/debian sid/main amd64 r-bioc-s4vectors amd64 0.50.3+dfsg-1 [1851 kB] Get:496 http://deb.debian.org/debian sid/main amd64 r-bioc-biocio all 1.22.0+dfsg-1 [213 kB] Get:497 http://deb.debian.org/debian sid/main amd64 r-cran-formatr all 1.14-3 [152 kB] Get:498 http://deb.debian.org/debian sid/main amd64 r-cran-lambda.r all 1.2.4-3 [119 kB] Get:499 http://deb.debian.org/debian sid/main amd64 r-cran-futile.options all 1.0.1-4 [20.6 kB] Get:500 http://deb.debian.org/debian sid/main amd64 r-cran-futile.logger all 1.4.9-2 [121 kB] Get:501 http://deb.debian.org/debian sid/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get:502 http://deb.debian.org/debian sid/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:503 http://deb.debian.org/debian sid/main amd64 r-cran-bh all 1.90.0-1 [6220 B] Get:504 http://deb.debian.org/debian sid/main amd64 r-cran-cpp11 all 0.5.5-1 [236 kB] Get:505 http://deb.debian.org/debian sid/main amd64 r-bioc-biocparallel amd64 1.46.0-1 [971 kB] Get:506 http://deb.debian.org/debian sid/main amd64 r-bioc-iranges amd64 2.46.0-1 [2336 kB] Get:507 http://deb.debian.org/debian sid/main amd64 r-bioc-xvector amd64 0.52.0-1 [629 kB] Get:508 http://deb.debian.org/debian sid/main amd64 r-bioc-seqinfo all 1.2.0+dfsg-1 [390 kB] Get:509 http://deb.debian.org/debian sid/main amd64 r-cran-crayon all 1.5.3-2 [164 kB] Get:510 http://deb.debian.org/debian sid/main amd64 r-bioc-biostrings amd64 2.80.2+dfsg-1 [13.3 MB] Get:511 http://deb.debian.org/debian sid/main amd64 r-bioc-cigarillo amd64 1.2.1+dfsg-1 [141 kB] Get:512 http://deb.debian.org/debian sid/main amd64 r-cran-lattice amd64 0.23-1-1 [1457 kB] Get:513 http://deb.debian.org/debian sid/main amd64 r-cran-matrix amd64 1.7-6-1 [4192 kB] Get:514 http://deb.debian.org/debian sid/main amd64 r-cran-matrixstats amd64 1.5.0-3 [503 kB] Get:515 http://deb.debian.org/debian sid/main amd64 r-bioc-matrixgenerics all 1.24.0-1 [444 kB] Get:516 http://deb.debian.org/debian sid/main amd64 r-cran-abind all 1.4-8-1 [68.1 kB] Get:517 http://deb.debian.org/debian sid/main amd64 r-bioc-s4arrays amd64 1.12.1+dfsg-1 [846 kB] Get:518 http://deb.debian.org/debian sid/main amd64 r-bioc-sparsearray amd64 1.12.3+dfsg-1 [1386 kB] Get:519 http://deb.debian.org/debian sid/main amd64 r-bioc-delayedarray all 0.38.2+dfsg-1 [1999 kB] Get:520 http://deb.debian.org/debian sid/main amd64 r-bioc-genomicranges all 1.64.0+dfsg-1 [2087 kB] Get:521 http://deb.debian.org/debian sid/main amd64 r-bioc-summarizedexperiment all 1.42.0+dfsg-1 [1119 kB] Get:522 http://deb.debian.org/debian sid/main amd64 r-cran-locfit amd64 1.5-9.12-2 [513 kB] Get:523 http://deb.debian.org/debian sid/main amd64 r-cran-cli amd64 3.6.6-1 [1391 kB] Get:524 http://deb.debian.org/debian sid/main amd64 r-cran-glue amd64 1.8.1-2 [172 kB] Get:525 http://deb.debian.org/debian sid/main amd64 r-cran-rlang amd64 1.3.0-1 [1742 kB] Get:526 http://deb.debian.org/debian sid/main amd64 r-cran-lifecycle all 1.0.5+dfsg-1 [120 kB] Get:527 http://deb.debian.org/debian sid/main amd64 r-cran-gtable all 0.3.6+dfsg-2 [228 kB] Get:528 http://deb.debian.org/debian sid/main amd64 r-cran-isoband amd64 0.3.0-1 [1644 kB] Get:529 http://deb.debian.org/debian sid/main amd64 r-cran-s7 amd64 0.2.2-1 [331 kB] Get:530 http://deb.debian.org/debian sid/main amd64 r-cran-farver amd64 2.1.2-3 [1414 kB] Get:531 http://deb.debian.org/debian sid/main amd64 r-cran-labeling all 0.4.3-2 [63.2 kB] Get:532 http://deb.debian.org/debian sid/main amd64 r-cran-r6 all 2.6.1-2 [106 kB] Get:533 http://deb.debian.org/debian sid/main amd64 r-cran-rcolorbrewer all 1.1-3-2 [54.0 kB] Get:534 http://deb.debian.org/debian sid/main amd64 r-cran-viridislite all 0.4.3-1 [1299 kB] Get:535 http://deb.debian.org/debian sid/main amd64 r-cran-scales all 1.4.0-1 [800 kB] Get:536 http://deb.debian.org/debian sid/main amd64 r-cran-vctrs amd64 0.7.3-2 [1983 kB] Get:537 http://deb.debian.org/debian sid/main amd64 r-cran-withr all 3.0.3+dfsg-1 [229 kB] Get:538 http://deb.debian.org/debian sid/main amd64 r-cran-ggplot2 all 4.0.3+dfsg-1 [4923 kB] Get:539 http://deb.debian.org/debian sid/main amd64 r-cran-littler amd64 0.3.23-1 [96.5 kB] Get:540 http://deb.debian.org/debian sid/main amd64 r-cran-pkgkitten all 0.2.4-1 [29.1 kB] Get:541 http://deb.debian.org/debian sid/main amd64 r-cran-rcpp amd64 1.1.2-1 [2168 kB] Get:542 http://deb.debian.org/debian sid/main amd64 r-cran-rcpparmadillo amd64 15.6.2-1-1 [848 kB] Get:543 http://deb.debian.org/debian sid/main amd64 r-bioc-deseq2 amd64 1.52.0+dfsg-1 [1453 kB] Get:544 http://deb.debian.org/debian sid/main amd64 r-cran-curl amd64 8.0.0+dfsg-1 [228 kB] Get:545 http://deb.debian.org/debian sid/main amd64 r-cran-jsonlite amd64 2.0.0+dfsg-2 [447 kB] Get:546 http://deb.debian.org/debian sid/main amd64 r-cran-mime amd64 0.13-2 [47.5 kB] Get:547 http://deb.debian.org/debian sid/main amd64 r-cran-sys amd64 3.4.3-3 [44.4 kB] Get:548 http://deb.debian.org/debian sid/main amd64 r-cran-askpass amd64 1.2.1-3 [24.5 kB] Get:549 http://deb.debian.org/debian sid/main amd64 r-cran-openssl amd64 2.4.2+dfsg-1 [402 kB] Get:550 http://deb.debian.org/debian sid/main amd64 r-cran-httr all 1.4.9+dfsg-1 [470 kB] Get:551 http://deb.debian.org/debian sid/main amd64 r-bioc-ucsc.utils all 1.8.0+dfsg-1 [78.7 kB] Get:552 http://deb.debian.org/debian sid/main amd64 r-bioc-genomeinfodb all 1.48.0+dfsg-1 [3545 kB] Get:553 http://deb.debian.org/debian sid/main amd64 r-cran-bitops amd64 1.1-0-1 [31.0 kB] Get:554 http://deb.debian.org/debian sid/main amd64 r-bioc-rhtslib amd64 3.8.0+dfsg-1 [1344 kB] Get:555 http://deb.debian.org/debian sid/main amd64 r-bioc-rsamtools amd64 2.28.0+dfsg-1+b1 [2625 kB] Get:556 http://deb.debian.org/debian sid/main amd64 r-bioc-genomicalignments amd64 1.48.0+dfsg-1 [1941 kB] Get:557 http://deb.debian.org/debian sid/main amd64 r-cran-xml amd64 3.99-0.25-1 [1737 kB] Get:558 http://deb.debian.org/debian sid/main amd64 r-cran-rcurl amd64 1.98-1.20+dfsg-1 [807 kB] Get:559 http://deb.debian.org/debian sid/main amd64 r-cran-rjson amd64 0.2.23-1+b1 [101 kB] Get:560 http://deb.debian.org/debian sid/main amd64 r-cran-yaml amd64 2.3.12-2 [120 kB] Get:561 http://deb.debian.org/debian sid/main amd64 r-cran-restfulr amd64 0.0.17-1 [392 kB] Get:562 http://deb.debian.org/debian sid/main amd64 r-bioc-rtracklayer amd64 1.72.0+ds-1+b1 [5183 kB] Get:563 http://deb.debian.org/debian sid/main amd64 r-bioc-tximport all 1.40.0+dfsg-1 [91.2 kB] Get:564 http://deb.debian.org/debian sid/main amd64 r-cran-backports amd64 1.5.1-2 [122 kB] Get:565 http://deb.debian.org/debian sid/main amd64 r-cran-base64enc amd64 0.1-6-2 [30.7 kB] Get:566 http://deb.debian.org/debian sid/main amd64 r-cran-boot all 1.3-32-1 [639 kB] Get:567 http://deb.debian.org/debian sid/main amd64 r-cran-magrittr amd64 2.0.5-1 [209 kB] Get:568 http://deb.debian.org/debian sid/main amd64 r-cran-utf8 amd64 1.2.6-2 [138 kB] Get:569 http://deb.debian.org/debian sid/main amd64 r-cran-pillar all 1.11.1+dfsg-1 [457 kB] Get:570 http://deb.debian.org/debian sid/main amd64 r-cran-pkgconfig all 2.0.3-3 [21.7 kB] Get:571 http://deb.debian.org/debian sid/main amd64 r-cran-tibble amd64 3.3.1+dfsg-2 [452 kB] Get:572 http://deb.debian.org/debian sid/main amd64 r-cran-tidyselect amd64 1.2.1+dfsg-3 [224 kB] Get:573 http://deb.debian.org/debian sid/main amd64 r-cran-dplyr amd64 1.2.1-2 [1574 kB] Get:574 http://deb.debian.org/debian sid/main amd64 r-cran-purrr amd64 1.2.2-1 [575 kB] Get:575 http://deb.debian.org/debian sid/main amd64 r-cran-stringi amd64 1.8.9-1 [906 kB] Get:576 http://deb.debian.org/debian sid/main amd64 r-cran-stringr all 1.6.0-1 [323 kB] Get:577 http://deb.debian.org/debian sid/main amd64 r-cran-tidyr amd64 1.3.2-3 [1163 kB] Get:578 http://deb.debian.org/debian sid/main amd64 r-cran-broom all 1.0.13+dfsg-2 [1662 kB] Get:579 http://deb.debian.org/debian sid/main amd64 r-cran-fastmap amd64 1.2.0-3 [79.8 kB] Get:580 http://deb.debian.org/debian sid/main amd64 r-cran-cachem amd64 1.1.0-3 [79.6 kB] Get:581 http://deb.debian.org/debian sid/main amd64 r-cran-digest amd64 0.6.39-1 [212 kB] Get:582 http://deb.debian.org/debian sid/main amd64 r-cran-htmltools amd64 0.5.9-2 [377 kB] Get:583 http://deb.debian.org/debian sid/main amd64 r-cran-jquerylib all 0.1.4+dfsg-6 [14.1 kB] Get:584 http://deb.debian.org/debian sid/main amd64 r-cran-memoise all 2.0.1-2 [54.3 kB] Get:585 http://deb.debian.org/debian sid/main amd64 r-cran-fs amd64 2.1.0+dfsg-1 [259 kB] Get:586 http://deb.debian.org/debian sid/main amd64 r-cran-rappdirs amd64 0.3.4-2 [50.4 kB] Get:587 http://deb.debian.org/debian sid/main amd64 r-cran-sass amd64 0.4.10+dfsg-3 [1023 kB] Get:588 http://deb.debian.org/debian sid/main amd64 r-cran-bslib all 0.10.0+dfsg-1 [5074 kB] Get:589 http://deb.debian.org/debian sid/main amd64 r-cran-cardata all 3.0.6-1 [1678 kB] Get:590 http://deb.debian.org/debian sid/main amd64 r-cran-formula all 1.2-6-1 [72.9 kB] Get:591 http://deb.debian.org/debian sid/main amd64 r-cran-mass amd64 7.3-66-1 [1113 kB] Get:592 http://deb.debian.org/debian sid/main amd64 r-cran-nlme amd64 3.1.171-1 [2330 kB] Get:593 http://deb.debian.org/debian sid/main amd64 r-cran-mgcv amd64 1.9-4-1 [3608 kB] Get:594 http://deb.debian.org/debian sid/main amd64 r-cran-nnet amd64 7.3-21-1 [113 kB] Get:595 http://deb.debian.org/debian sid/main amd64 r-cran-rbibutils amd64 2.4.1-3 [1008 kB] Get:596 http://deb.debian.org/debian sid/main amd64 r-cran-rdpack all 2.6.6-1 [638 kB] Get:597 http://deb.debian.org/debian sid/main amd64 r-cran-minqa amd64 1.2.8-1 [118 kB] Get:598 http://deb.debian.org/debian sid/main amd64 r-cran-nloptr amd64 2.2.1-2+b1 [256 kB] Get:599 http://deb.debian.org/debian sid/main amd64 r-cran-reformulas all 0.4.4-1 [150 kB] Get:600 http://deb.debian.org/debian sid/main amd64 r-cran-rcppeigen amd64 0.3.4.0.2-1 [1411 kB] Get:601 http://deb.debian.org/debian sid/main amd64 r-cran-statmod amd64 1.5.2-1 [307 kB] Get:602 http://deb.debian.org/debian sid/main amd64 r-cran-lme4 amd64 2.0-6-1 [5129 kB] Get:603 http://deb.debian.org/debian sid/main amd64 r-cran-numderiv all 2016.8-1.1-3 [115 kB] Get:604 http://deb.debian.org/debian sid/main amd64 r-cran-cowplot all 1.2.0+dfsg-1 [653 kB] Get:605 http://deb.debian.org/debian sid/main amd64 r-cran-deriv amd64 4.3.5-1 [203 kB] Get:606 http://deb.debian.org/debian sid/main amd64 r-cran-colorspace amd64 2.1-4+dfsg-1 [1730 kB] Get:607 http://deb.debian.org/debian sid/main amd64 r-cran-fracdiff amd64 1.5-4-1 [114 kB] Get:608 http://deb.debian.org/debian sid/main amd64 r-cran-zoo amd64 1.9-1-1 [954 kB] Get:609 http://deb.debian.org/debian sid/main amd64 r-cran-lmtest amd64 0.9.40-1 [399 kB] Get:610 http://deb.debian.org/debian sid/main amd64 r-cran-timedate amd64 4052.112-2 [1302 kB] Get:611 http://deb.debian.org/debian sid/main amd64 r-cran-urca amd64 1.3-4-1 [1052 kB] Get:612 http://deb.debian.org/debian sid/main amd64 r-cran-forecast amd64 9.0.2-2 [1627 kB] Get:613 http://deb.debian.org/debian sid/main amd64 r-cran-modelr all 0.1.11-3 [208 kB] Get:614 http://deb.debian.org/debian sid/main amd64 r-cran-microbenchmark amd64 1.5.0-1 [67.1 kB] Get:615 http://deb.debian.org/debian sid/main amd64 r-cran-doby all 4.7.2-2 [4759 kB] Get:616 http://deb.debian.org/debian sid/main amd64 r-cran-evaluate all 1.0.5-3 [118 kB] Get:617 http://deb.debian.org/debian sid/main amd64 r-cran-xfun amd64 0.61+dfsg-1 [672 kB] Get:618 http://deb.debian.org/debian sid/main amd64 r-cran-highr all 0.12+dfsg-1 [38.3 kB] Get:619 http://deb.debian.org/debian sid/main amd64 r-cran-knitr all 1.51+dfsg-2 [847 kB] Get:620 http://deb.debian.org/debian sid/main amd64 r-cran-pbkrtest all 0.5.5-2 [222 kB] Get:621 http://deb.debian.org/debian sid/main amd64 r-cran-sparsem amd64 1.84-2-1+b1 [794 kB] Get:622 http://deb.debian.org/debian sid/main amd64 r-cran-matrixmodels all 0.5-4-2 [357 kB] Get:623 http://deb.debian.org/debian sid/main amd64 r-cran-survival amd64 3.8-12-1 [7862 kB] Get:624 http://deb.debian.org/debian sid/main amd64 r-cran-class amd64 7.3-24-1 [89.1 kB] Get:625 http://deb.debian.org/debian sid/main amd64 r-cran-proxy amd64 0.4-29-1 [181 kB] Get:626 http://deb.debian.org/debian sid/main amd64 r-cran-e1071 amd64 1.7-17-1 [579 kB] Get:627 http://deb.debian.org/debian sid/main amd64 r-cran-iterators all 1.0.14-1 [337 kB] Get:628 http://deb.debian.org/debian sid/main amd64 r-cran-foreach all 1.5.2-1 [122 kB] Get:629 http://deb.debian.org/debian sid/main amd64 r-cran-data.table amd64 1.18.6.1+dfsg-1 [2351 kB] Get:630 http://deb.debian.org/debian sid/main amd64 r-cran-modelmetrics amd64 1.2.2.2-2 [149 kB] Get:631 http://deb.debian.org/debian sid/main amd64 r-cran-plyr amd64 1.8.9-2 [792 kB] Get:632 http://deb.debian.org/debian sid/main amd64 r-cran-proc amd64 1.19.1-1 [1168 kB] Get:633 http://deb.debian.org/debian sid/main amd64 r-cran-tzdb amd64 0.5.0-1 [515 kB] Get:634 http://deb.debian.org/debian sid/main amd64 r-cran-clock amd64 0.7.4-2 [1835 kB] Get:635 http://deb.debian.org/debian sid/main amd64 r-cran-gower amd64 1.0.2-2 [208 kB] Get:636 http://deb.debian.org/debian sid/main amd64 r-cran-sparsevctrs amd64 0.3.6-2 [214 kB] Get:637 http://deb.debian.org/debian sid/main amd64 r-cran-hardhat all 1.4.3+dfsg-1 [724 kB] Get:638 http://deb.debian.org/debian sid/main amd64 r-cran-rpart amd64 4.1.27-1 [689 kB] Get:639 http://deb.debian.org/debian sid/main amd64 r-cran-shape all 1.4.6.1-2 [751 kB] Get:640 http://deb.debian.org/debian sid/main amd64 r-cran-diagram all 1.6.5-3 [662 kB] Get:641 http://deb.debian.org/debian sid/main amd64 r-cran-kernsmooth amd64 2.23-27-1 [93.4 kB] Get:642 http://deb.debian.org/debian sid/main amd64 r-cran-globals all 0.19.1-2 [165 kB] Get:643 http://deb.debian.org/debian sid/main amd64 r-cran-listenv all 1.1.0+dfsg-1 [128 kB] Get:644 http://deb.debian.org/debian sid/main amd64 r-cran-parallelly amd64 1.47.0-1 [608 kB] Get:645 http://deb.debian.org/debian sid/main amd64 r-cran-future all 1.75.0+dfsg-1 [947 kB] Get:646 http://deb.debian.org/debian sid/main amd64 r-cran-future.apply all 1.20.2+dfsg-1 [192 kB] Get:647 http://deb.debian.org/debian sid/main amd64 r-cran-progressr all 1.0.0-1 [506 kB] Get:648 http://deb.debian.org/debian sid/main amd64 r-cran-squarem all 2026.1-1 [180 kB] Get:649 http://deb.debian.org/debian sid/main amd64 r-cran-lava all 1.9.3+dfsg-1 [2350 kB] Get:650 http://deb.debian.org/debian sid/main amd64 r-cran-prodlim amd64 2026.03.11-1 [530 kB] Get:651 http://deb.debian.org/debian sid/main amd64 r-cran-ipred amd64 0.9-16-1 [394 kB] Get:652 http://deb.debian.org/debian sid/main amd64 r-cran-timechange amd64 0.4.0-1 [176 kB] Get:653 http://deb.debian.org/debian sid/main amd64 r-cran-lubridate amd64 1.9.5+dfsg-2 [1020 kB] Get:654 http://deb.debian.org/debian sid/main amd64 r-cran-recipes all 1.3.3+dfsg-2 [2168 kB] Get:655 http://deb.debian.org/debian sid/main amd64 r-cran-reshape2 amd64 1.4.5-1 [120 kB] Get:656 http://deb.debian.org/debian sid/main amd64 r-cran-caret amd64 7.0-1+dfsg-2 [3471 kB] Get:657 http://deb.debian.org/debian sid/main amd64 r-cran-conquer amd64 1.3.3-1 [471 kB] Get:658 http://deb.debian.org/debian sid/main amd64 r-cran-quantreg amd64 6.1-1 [1442 kB] Get:659 http://deb.debian.org/debian sid/main amd64 r-cran-car all 3.1-5-1 [1535 kB] Get:660 http://deb.debian.org/debian sid/main amd64 r-cran-fontawesome all 0.5.3-2 [1311 kB] Get:661 http://deb.debian.org/debian sid/main amd64 r-cran-tinytex all 0.61-1 [156 kB] Get:662 http://deb.debian.org/debian sid/main amd64 r-cran-commonmark amd64 2.0.0-3 [124 kB] Get:663 http://deb.debian.org/debian sid/main amd64 r-cran-later amd64 1.4.8+dfsg-3 [145 kB] Get:664 http://deb.debian.org/debian sid/main amd64 r-cran-otel all 0.2.0-1 [293 kB] Get:665 http://deb.debian.org/debian sid/main amd64 r-cran-promises all 1.5.0+dfsg-3 [302 kB] Get:666 http://deb.debian.org/debian sid/main amd64 r-cran-httpuv amd64 1.6.17+dfsg-1 [545 kB] Get:667 http://deb.debian.org/debian sid/main amd64 r-cran-sourcetools amd64 0.1.7-2-2 [46.6 kB] Get:668 http://deb.debian.org/debian sid/main amd64 r-cran-xtable all 1:1.8-8-1 [737 kB] Get:669 http://deb.debian.org/debian sid/main amd64 r-cran-shiny all 1.13.0+dfsg-1 [3057 kB] Get:670 http://deb.debian.org/debian sid/main amd64 r-cran-rmarkdown all 2.31+dfsg-1 [1472 kB] Get:671 http://deb.debian.org/debian sid/main amd64 r-cran-htmlwidgets all 1.6.4+dfsg-2 [124 kB] Get:672 http://deb.debian.org/debian sid/main amd64 r-cran-miniui all 0.1.2-1 [37.4 kB] Get:673 http://deb.debian.org/debian sid/main amd64 r-cran-shinyjs all 2.1.1-1 [987 kB] Get:674 http://deb.debian.org/debian sid/main amd64 r-cran-colourpicker all 1.3.0+dfsg-2 [1213 kB] Get:675 http://deb.debian.org/debian sid/main amd64 r-cran-corrplot all 0.95-2 [134 kB] Get:676 http://deb.debian.org/debian sid/main amd64 r-cran-lazyeval amd64 0.2.3-1 [170 kB] Get:677 http://deb.debian.org/debian sid/main amd64 r-cran-crosstalk all 1.2.2+dfsg-1 [181 kB] Get:678 http://deb.debian.org/debian sid/main amd64 r-cran-dt all 0.34.0+dfsg-1 [246 kB] Get:679 http://deb.debian.org/debian sid/main amd64 r-cran-ggrepel amd64 0.9.8-1 [340 kB] Get:680 http://deb.debian.org/debian sid/main amd64 r-cran-ggsci all 5.2.0-1 [2075 kB] Get:681 http://deb.debian.org/debian sid/main amd64 r-cran-ggsignif all 0.6.4-2 [587 kB] Get:682 http://deb.debian.org/debian sid/main amd64 r-cran-gridextra all 2.3.1-1 [505 kB] Get:683 http://deb.debian.org/debian sid/main amd64 r-cran-polynom all 1.4-1+dfsg-2 [94.5 kB] Get:684 http://deb.debian.org/debian sid/main amd64 r-cran-rstatix all 1.1.0-1 [1121 kB] Get:685 http://deb.debian.org/debian sid/main amd64 r-cran-ggpubr all 1.0.0-1 [2412 kB] Get:686 http://deb.debian.org/debian sid/main amd64 r-cran-plotly all 4.12.1+dfsg-1 [4441 kB] Get:687 http://deb.debian.org/debian sid/main amd64 r-cran-gprofiler2 all 0.2.4+dfsg-1 [128 kB] Get:688 http://deb.debian.org/debian sid/main amd64 r-cran-pheatmap all 1.0.13-1 [80.1 kB] Get:689 http://deb.debian.org/debian sid/main amd64 salmon amd64 1.10.3+ds1-3+b2 [3472 kB] Get:690 http://deb.debian.org/debian sid/main amd64 samtools amd64 1.24-2 [730 kB] Get:691 http://deb.debian.org/debian sid/main amd64 snakemake all 7.32.4-12 [314 kB] Get:692 http://deb.debian.org/debian sid/main amd64 trim-galore all 0.6.10-1 [17.8 MB] Preconfiguring packages ... Fetched 729 MB in 49s (14.9 MB/s) Selecting previously unselected package libsystemd-shared: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 ... 5486 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_262.1-1_amd64.deb ... Unpacking libsystemd-shared:amd64 (262.1-1) ... Setting up libsystemd-shared:amd64 (262.1-1) ... Selecting previously unselected package systemd. (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 ... 5494 files and directories currently installed.) Preparing to unpack .../systemd_262.1-1_amd64.deb ... Unpacking systemd (262.1-1) ... Setting up systemd (262.1-1) ... Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' → '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' → '/usr/lib/systemd/system/systemd-pstore.service'. Created symlink '/etc/systemd/system/autovt@.service' → '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' → '/usr/lib/systemd/system/getty@.service'. Initializing machine ID from random generator. Creating group 'lpadmin' with GID 999. Creating group 'systemd-journal' with GID 998. Creating group 'systemd-network' with GID 997. Creating user 'systemd-network' (systemd Network Management) with UID 997 and GID 997. [ESC][0;1;31m"/home" already exists and is not a directory.[ESC][0m 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 ... 6455 files and directories currently installed.) Preparing to unpack .../0-systemd-sysv_262.1-1_amd64.deb ... Unpacking systemd-sysv (262.1-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../1-libexpat1_2.9.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.9.0-1) ... Selecting previously unselected package libzopfli1. Preparing to unpack .../2-libzopfli1_1.0.3-3_amd64.deb ... Unpacking libzopfli1 (1.0.3-3) ... Selecting previously unselected package pigz. Preparing to unpack .../3-pigz_2.8-2_amd64.deb ... Unpacking pigz (2.8-2) ... Selecting previously unselected package libpython3.14-minimal:amd64. Preparing to unpack .../4-libpython3.14-minimal_3.14.8-1_amd64.deb ... Unpacking libpython3.14-minimal:amd64 (3.14.8-1) ... Selecting previously unselected package python3.14-minimal. Preparing to unpack .../5-python3.14-minimal_3.14.8-1_amd64.deb ... Unpacking python3.14-minimal (3.14.8-1) ... Setting up libpython3.14-minimal:amd64 (3.14.8-1) ... Setting up libexpat1:amd64 (2.9.0-1) ... Setting up python3.14-minimal (3.14.8-1) ... 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 ... 6841 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.14.7-3_amd64.deb ... Unpacking python3-minimal (3.14.7-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_14.0.0_all.deb ... Unpacking media-types (14.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.6_all.deb ... Unpacking netbase (6.6) ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.7+ds-1) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../353-libxft2_2.3.6-1+b5_amd64.deb ... Unpacking libxft2:amd64 (2.3.6-1+b5) ... Selecting previously unselected package libxss1:amd64. Preparing to unpack .../354-libxss1_1%3a1.2.3-1+b4_amd64.deb ... Unpacking libxss1:amd64 (1:1.2.3-1+b4) ... Selecting previously unselected package libtk8.6:amd64. Preparing to unpack .../355-libtk8.6_8.6.18-1_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.18-1) ... Selecting previously unselected package libuv1t64:amd64. Preparing to unpack .../356-libuv1t64_1.53.0-1_amd64.deb ... Unpacking libuv1t64:amd64 (1.53.0-1) ... 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Setting up libperl5.42:amd64 (5.42.3-1) ... Setting up libpaper-utils (2.2.5-0.4) ... Setting up libxom-java (1.4.6-2) ... Setting up libjs-jquery-datatables (1.11.5+dfsg-2) ... Setting up libxxf86vm1:amd64 (1:1.1.4-2+b1) ... Setting up libtbbbind-2-5:amd64 (2023.1.0-3) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up coinor-libcoinutils3v5:amd64 (2.11.12+ds-1+b2) ... Setting up libthai0:amd64 (0.1.30-3) ... Setting up ca-certificates (20260816) ... Updating certificates in /etc/ssl/certs... 121 added, 0 removed; done. Setting up perl (5.42.3-1) ... Setting up libglib2.0-0t64:amd64 (2.90.1-2) ... Setting up libgprofng0:amd64 (2.47-6) ... Setting up libmbedx509-7:amd64 (3.6.7-3) ... Setting up libjs-jquery-ui (1.14.2+dfsg-1) ... Setting up pandoc (3.11-1) ... Setting up libfreetype6:amd64 (2.14.3+dfsg-3) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b5) ... Setting up libjs-jquery-metadata (12-4) ... Setting up dbus (1.16.2-8) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b3) ... Setting up libp11-kit0:amd64 (0.26.5-1) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b5) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-3) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b4) ... Setting up libcommons-collections4-java (4.6.0-1) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.24.0-1) ... Setting up coinor-libosi1v5:amd64 (0.108.11+ds-1+b2) ... Setting up libcommons-lang3-java (3.20.0-1) ... Setting up libdpkg-perl (1.23.11) ... Setting up libmbedtls21:amd64 (3.6.7-3) ... Setting up libreadline8t64:amd64 (8.3-4) ... Setting up libdrm2:amd64 (2.4.134-3) ... Setting up libjs-jquery-tablesorter (1:2.31.3+dfsg1-5) ... Setting up libwayland-cursor0:amd64 (1.26.0-1) ... Setting up xml-core (0.21) ... Setting up libjson-perl (4.10000-1) ... Setting up libpam-systemd:amd64 (262.1-1) ... Setting up libcommons-beanutils-java (1.10.1-1.1) ... Setting up libc6-dev:amd64 (2.43-7) ... Setting up libharfbuzz0b:amd64 (12.3.2-2+b2) ... Setting up libsnappy-java (1.1.10.8-1) ... Setting up cpp-16-x86-64-linux-gnu (16.2.0-3) ... Setting up libxss1:amd64 (1:1.2.3-1+b4) ... Setting up libfontconfig1:amd64 (2.17.1-5) ... Setting up ca-certificates-java (20260311) ... No JRE found. Skipping Java certificates setup. Setting up libcommons-codec-java (1.22.1-1) ... Setting up libsm6:amd64 (2:1.2.6-1+b2) ... Setting up libavahi-client3:amd64 (0.8-18) ... Setting up libxres1:amd64 (2:1.2.1-2) ... Setting up binutils-x86-64-linux-gnu (2.47-6) ... Setting up libdrm-amdgpu1:amd64 (2.4.134-3) ... Setting up cpp-x86-64-linux-gnu (4:16.1.0-3) ... Setting up libgnutls30t64:amd64 (3.8.13-1) ... Setting up libslf4j-java (1.7.36-1) ... Setting up fontconfig (2.17.1-5) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1+b5) ... Setting up libatk1.0-0t64:amd64 (2.62.1-1) ... Setting up user-session-migration (0.5.2) ... Created symlink '/etc/systemd/user/graphical-session-pre.target.wants/user-session-migration.service' → '/usr/lib/systemd/user/user-session-migration.service'. Setting up libxi6:amd64 (2:1.8.3-1) ... Setting up libtirpc3t64:amd64 (1.3.7+ds-1) ... Setting up libpython3.14-stdlib:amd64 (3.14.8-1) ... Setting up libcommons-io-java (2.22.0-1) ... Setting up libxtst6:amd64 (2:1.2.5-1+b2) ... Setting up libtk8.6:amd64 (8.6.18-1) ... Setting up libxcursor1:amd64 (1:1.2.3-1+b2) ... Setting up openjdk-25-jre-headless:amd64 (25.0.5~7ea-2) ... update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libpango-1.0-0:amd64 (1.58.2-1) ... Setting up libdrm-intel1:amd64 (2.4.134-3) ... Setting up libpsl5t64:amd64 (0.23.3-1) ... Setting up libcloudproviders0:amd64 (0.4.1-1) ... Setting up gcc-16-x86-64-linux-gnu (16.2.0-3) ... Setting up libtbb12:amd64 (2023.1.0-3) ... Setting up libfindbin-libs-perl (4.0.4-1) ... Setting up binutils (2.47-6) ... Setting up libcairo2:amd64 (1.18.4-3+b1) ... Setting up libcolord2:amd64 (1.4.8-3) ... Setting up dpkg-dev (1.23.11) ... Setting up liberror-perl (0.17030-1) ... Setting up libdconf1:amd64 (51.0-2) ... Setting up dbus-user-session (1.16.2-8) ... Setting up coinor-libclp1:amd64 (1.17.10+ds-1+b2) ... Setting up libatspi2.0-0t64:amd64 (2.62.1-1) ... Setting up libraqm0:amd64 (0.10.5-1) ... Setting up sphinx-common (9.1.0-9) ... Setting up libstdc++-16-dev:amd64 (16.2.0-3) ... Setting up libxt6t64:amd64 (1:1.2.1-1.3+b2) ... Setting up g++-16-x86-64-linux-gnu (16.2.0-3) ... Setting up libpython3.14:amd64 (3.14.8-1) ... Setting up libharfbuzz-subset0:amd64 (12.3.2-2+b2) ... Setting up cpp-16 (16.2.0-3) ... Setting up libcairo-gobject2:amd64 (1.18.4-3+b1) ... Setting up coinor-libcgl1:amd64 (0.60.10+ds-1) ... Setting up python3.14 (3.14.8-1) ... Setting up libpangoft2-1.0-0:amd64 (1.58.2-1) ... Setting up libcups2t64:amd64 (2.4.20-1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.24.0-1) ... Setting up libpangocairo-1.0-0:amd64 (1.58.2-1) ... Setting up libpython3-stdlib:amd64 (3.14.7-3) ... Setting up libatk-bridge2.0-0t64:amd64 (2.62.1-1) ... Setting up libcurl4-gnutls:amd64 (8.23.0-1) ... Setting up mesa-libgallium:amd64 (26.2.5-1) ... Setting up python3.14-tk (3.14.8-1) ... Setting up gcc-x86-64-linux-gnu (4:16.1.0-3) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up libcurl4t64:amd64 (8.23.0-1) ... Setting up libgbm1:amd64 (26.2.5-1) ... Setting up libgl1-mesa-dri:amd64 (26.2.5-1) ... Setting up libcurl3t64-gnutls:amd64 (8.23.0-1) ... Setting up gcc-16 (16.2.0-3) ... Setting up python3-tk (3.14.7-3) ... Setting up dconf-service (51.0-2) ... Setting up python3 (3.14.7-3) ... Setting up python3-click (8.3.3-3) ... Setting up python3-networkx (3.4.2-6) ... Setting up python3-markupsafe (3.0.3-2+b1) ... Setting up python3-uc-micro (2.0.0-1) ... Setting up python3-plac (1.4.5-3) ... Setting up python3-platformdirs (4.11.9-1) ... Setting up python3-psutil (7.2.2-2) ... Setting up python3-zopfli (0.4.3-2) ... Setting up python3-pil:amd64 (12.3.0-1+b1) ... Setting up python3-decorator (5.3.1-1) ... Setting up python3-jinja2 (3.1.6-4) ... Setting up python3-pygments (2.20.0+dfsg-2) ... Setting up python3-xopen (1.7.0-4) ... Setting up python3-packaging (26.2-3) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up python3-pyparsing (3.3.3-2) ... Setting up python3-humanfriendly (10.0-7) ... /usr/lib/python3/dist-packages/humanfriendly/testing.py:546: SyntaxWarning: 'return' in a 'finally' block return super(MockedProgram, self).__exit__(*args, **kw) Setting up python3-certifi (2026.7.22+ds-1) ... Setting up python3-pil.imagetk:amd64 (12.3.0-1+b1) ... Setting up python3-snowballstemmer (3.1.1-1) ... Setting up python3-brotli (1.2.0-4+b1) ... Setting up python3-mdurl (0.1.2-2) ... Setting up python3-cycler (0.12.1-3) ... Setting up r-base-core (4.6.1-9) ... Creating config file /etc/R/Renviron with new version Setting up python3-dpath (2.2.0-2) ... Setting up python3-connection-pool (0.0.3-2) ... Setting up r-cran-crayon (1.5.3-2) ... Setting up r-cran-squarem (2026.1-1) ... Setting up python3-kiwisolver (1.5.1-1) ... Setting up r-cran-otel (0.2.0-1) ... Setting up python3-idna (3.20-1) ... Setting up r-cran-labeling (0.4.3-2) ... Setting up python3-wrapt (2.3.0-1) ... Setting up python3-markdown (3.10.3-1) ... Setting up python3-throttler (1.2.3-1) ... Setting up coinor-libcbc3.1:amd64 (2.10.13+ds-1) ... Setting up r-cran-sourcetools (0.1.7-2-2) ... Setting up r-cran-futile.options (1.0.1-4) ... Setting up python3-uharfbuzz (0.53.3-1+b1) ... Setting up python3-retry (0.9.2-5) ... Setting up git (1:2.55.0-1) ... Setting up r-cran-lattice (0.23-1-1) ... Setting up python3-numpy (1:2.4.6+ds-5) ... Setting up r-cran-nlme (3.1.171-1) ... Setting up python3-colormath (3.0.0-4) ... /usr/lib/python3/dist-packages/colormath/chromatic_adaptation.py:85: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. logger.debug(" \* Applying adaptation matrix: %s", adaptation) /usr/lib/python3/dist-packages/colormath/color_appearance_models.py:692: SyntaxWarning: "\s" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\s"? A raw string is also an option. :param sigma: Relative luminance parameter :math:`\sigma`. For average surround set :math:`\sigma=1/2.3`, /usr/lib/python3/dist-packages/colormath/color_appearance_models.py:798: SyntaxWarning: "\s" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\s"? A raw string is also an option. :param sigma: :math:`\sigma` /usr/lib/python3/dist-packages/colormath/color_conversions.py:40: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. logger.debug(" \* Applying RGB conversion matrix: %s->%s", /usr/lib/python3/dist-packages/colormath/color_conversions.py:488: SyntaxWarning: "\-" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\-"? A raw string is also an option. logger.debug(" \- Target RGB space: %s", target_rgb) /usr/lib/python3/dist-packages/colormath/color_conversions.py:490: SyntaxWarning: "\-" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\-"? A raw string is also an option. logger.debug(" \- Target native illuminant: %s", target_illum) /usr/lib/python3/dist-packages/colormath/color_conversions.py:491: SyntaxWarning: "\-" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\-"? A raw string is also an option. logger.debug(" \- XYZ color's illuminant: %s", cobj.illuminant) /usr/lib/python3/dist-packages/colormath/color_conversions.py:497: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. logger.debug(" \* Applying transformation from %s to %s ", /usr/lib/python3/dist-packages/colormath/color_conversions.py:503: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. logger.debug(" \* New values: %.3f, %.3f, %.3f", /usr/lib/python3/dist-packages/colormath/color_objects.py:452: SyntaxWarning: "\-" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\-"? A raw string is also an option. logger.debug(" \- Original illuminant: %s", self.illuminant) /usr/lib/python3/dist-packages/colormath/color_objects.py:453: SyntaxWarning: "\-" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\-"? A raw string is also an option. logger.debug(" \- Target illuminant: %s", target_illuminant) /usr/lib/python3/dist-packages/colormath/color_objects.py:459: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. logger.debug(" \* Applying transformation from %s to %s ", Setting up r-cran-farver (2.1.2-3) ... Setting up python3-urllib3 (2.8.0-2) ... Setting up r-cran-formatr (1.14-3) ... Setting up r-cran-formula (1.2-6-1) ... Setting up python3-rpds-py (0.30.0-2+b1) ... Setting up python3-fastjsonschema (2.22.1-1) ... Setting up r-cran-xml (3.99-0.25-1) ... Setting up g++-16 (16.2.0-3) ... Setting up hisat2 (2.2.1-5+b4) ... Setting up r-cran-viridislite (0.4.3-1) ... Setting up r-cran-locfit (1.5-9.12-2) ... Setting up python3-stopit (1.1.2-4) ... Setting up python3-lxml:amd64 (6.1.3-1) ... Setting up cpp (4:16.1.0-3) ... Setting up python3-traitlets (5.16.1-1) ... Setting up r-cran-sparsem (1.84-2-1+b1) ... Setting up r-cran-statmod (1.5.2-1) ... Setting up python3-linkify-it (2.2.0-1) ... Setting up g++-x86-64-linux-gnu (4:16.1.0-3) ... Setting up libhts3t64:amd64 (1.24-3) ... Setting up python3-roman-numerals (4.1.0-1) ... Setting up r-cran-nnet (7.3-21-1) ... Setting up ncbi-vdb-data (3.4.1+dfsg-1) ... Setting up python3-dateutil (2.9.0-5) ... Setting up python3-contourpy (1.3.3-2+b1) ... Setting up libbigwig0t64:amd64 (0.4.8+dfsg-3+b1) ... Setting up python3-py2bit (0.3.3-1+b3) ... Setting up python3-datrie (0.8.3-2+b2) ... Setting up r-cran-polynom (1.4-1+dfsg-2) ... Setting up r-cran-commonmark (2.0.0-3) ... Setting up r-cran-rjson (0.2.23-1+b1) ... Setting up r-cran-proxy (0.4-29-1) ... Setting up r-cran-r6 (2.6.1-2) ... Setting up r-cran-pkgkitten (0.2.4-1) ... Setting up python3-mpmath (1.4.1-4) ... Setting up python3-lzstring (1.0.4-3) ... Setting up python3-humanize (4.16.0-1) ... Setting up r-cran-numderiv (2016.8-1.1-3) ... Setting up python3-coloredlogs (15.0.1-2) ... Setting up python3-smmap (6.0.0-2) ... Setting up r-cran-magrittr (2.0.5-1) ... Setting up r-cran-rappdirs (0.3.4-2) ... Setting up python3-jupyter-core (5.9.1-1) ... Setting up r-cran-microbenchmark (1.5.0-1) ... Setting up python3-dnaio (1.2.4-1+b2) ... Setting up python3-imagesize (2.0.1-1) ... Setting up r-cran-littler (0.3.23-1) ... Setting up python3-toposort (1.10-2) ... Setting up python3-configargparse (1.7-4) ... Setting up python3-sympy (1.14.0-6) ... Setting up r-cran-fs (2.1.0+dfsg-1) ... Setting up r-cran-rcpp (1.1.2-1) ... Setting up python3-attr (26.1.0-1) ... Setting up r-cran-curl (8.0.0+dfsg-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-cran-nloptr (2.2.1-2+b1) ... Setting up r-cran-boot (1.3-32-1) ... Setting up r-cran-rlang (1.3.0-1) ... Setting up libglx-mesa0:amd64 (26.2.5-1) ... Setting up r-cran-matrixstats (1.5.0-3) ... Setting up python3-pysam (0.24.1+ds-2) ... Setting up python3-scipy (1.17.1-5+b1) ... Setting up r-cran-listenv (1.1.0+dfsg-1) ... Setting up python3-smart-open (7.5.1-2) ... Setting up libglx0:amd64 (1.7.0-3+b1) ... Setting up dconf-gsettings-backend:amd64 (51.0-2) ... Setting up python3-spectra (0.1.0-2) ... Setting up r-cran-xfun (0.61+dfsg-1) ... Setting up python3-babel (2.18.0+git2026-08-12-3) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up r-cran-urca (1.3-4-1) ... Setting up r-cran-sys (3.4.3-3) ... Setting up python3-deeptoolsintervals (0.1.9-3+b13) ... Setting up python3-lz4 (4.4.5+dfsg-1+b1) ... Setting up r-cran-withr (3.0.3+dfsg-1) ... Setting up r-cran-backports (1.5.1-2) ... Setting up r-cran-deriv (4.3.5-1) ... Setting up python3-defusedxml (0.7.1-3) ... Setting up python3-charset-normalizer (3.4.7-2+b1) ... Setting up r-cran-mime (0.13-2) ... Setting up python3-alabaster (1.0.0-2) ... Setting up r-cran-generics (0.1.4-1) ... Setting up r-cran-base64enc (0.1-6-2) ... Setting up r-cran-iterators (1.0.14-1) ... Setting up r-cran-abind (1.4-8-1) ... Setting up r-cran-digest (0.6.39-1) ... Setting up r-cran-yaml (2.3.12-2) ... Setting up python3-tenacity (9.1.4-2) ... Setting up r-cran-lambda.r (1.2.4-3) ... Setting up r-cran-gower (1.0.2-2) ... Setting up r-cran-evaluate (1.0.5-3) ... Setting up r-cran-timedate (4052.112-2) ... Setting up r-cran-highr (0.12+dfsg-1) ... Setting up r-cran-foreach (1.5.2-1) ... Setting up libncbi-vdb3:amd64 (3.4.1+dfsg-1) ... Setting up r-cran-cardata (3.0.6-1) ... Setting up libstaden-read14t64:amd64 (1.15.1-1) ... Setting up r-cran-mass (7.3-66-1) ... Setting up r-cran-proc (1.19.1-1) ... Setting up python3-tabulate (0.10.0-1) ... Setting up python3-yaml (6.0.3-1+b1) ... Setting up python3-pytz (2026.5-1) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up python3-gitdb (4.0.12-2) ... Setting up r-cran-data.table (1.18.6.1+dfsg-1) ... Setting up r-cran-glue (1.8.1-2) ... Setting up r-cran-fracdiff (1.5-4-1) ... Setting up r-cran-xtable (1:1.8-8-1) ... Setting up r-cran-cli (3.6.6-1) ... Setting up r-cran-rbibutils (2.4.1-3) ... Setting up r-cran-lifecycle (1.0.5+dfsg-1) ... Setting up r-cran-bitops (1.1-0-1) ... Setting up gcc (4:16.1.0-3) ... Setting up r-cran-progressr (1.0.0-1) ... Setting up samtools (1.24-2) ... Setting up r-cran-shape (1.4.6.1-2) ... Setting up python3-yte (1.5.4-1) ... Setting up r-cran-askpass (1.2.1-3) ... Setting up r-cran-fastmap (1.2.0-3) ... Setting up salmon (1.10.3+ds1-3+b2) ... Setting up r-cran-jsonlite (2.0.0+dfsg-2) ... Setting up r-cran-corrplot (0.95-2) ... Setting up r-cran-pkgconfig (2.0.3-3) ... Setting up python3-pyaml-env (1.2.1-2) ... /usr/lib/python3/dist-packages/pyaml_env/parse_config.py:58: SyntaxWarning: "\w" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\w"? A raw string is also an option. type_tag_pattern = re.compile(f'({type_tag}\w+\s)') Setting up r-cran-utf8 (1.2.6-2) ... Setting up r-cran-colorspace (2.1-4+dfsg-1) ... Setting up r-cran-parallelly (1.47.0-1) ... Setting up libgl1:amd64 (1.7.0-3+b1) ... Setting up coinor-cbc (2.10.13+ds-1) ... Setting up r-cran-stringi (1.8.9-1) ... Setting up python3-cutadapt (4.7-2+b5) ... Setting up r-cran-s7 (0.2.2-1) ... Setting up r-cran-cpp11 (0.5.5-1) ... Setting up r-cran-plyr (1.8.9-2) ... Setting up r-cran-rcolorbrewer (1.1-3-2) ... Setting up r-cran-isoband (0.3.0-1) ... Setting up python3-git (3.2.1-1) ... Setting up r-cran-futile.logger (1.4.9-2) ... Setting up r-cran-diagram (1.6.5-3) ... Setting up python3-requests (2.34.2-1) ... Setting up r-cran-scales (1.4.0-1) ... Setting up megadepth (1.2.0-5+b1) ... Setting up r-cran-gtable (0.3.6+dfsg-2) ... Setting up r-cran-zoo (1.9-1-1) ... Setting up r-cran-later (1.4.8+dfsg-3) ... Setting up r-cran-matrix (1.7-6-1) ... Setting up r-cran-htmltools (0.5.9-2) ... Setting up python3-pybigwig (0.3.25+dfsg-1+b1) ... Setting up r-cran-tinytex (0.61-1) ... Setting up python3-markdown-it (4.2.0-4) ... Setting up r-cran-kernsmooth (2.23-27-1) ... Setting up r-cran-knitr (1.51+dfsg-2) ... Setting up r-cran-mgcv (1.9-4-1) ... Setting up g++ (4:16.1.0-3) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up r-cran-cachem (1.1.0-3) ... Setting up r-cran-lmtest (0.9.40-1) ... Setting up build-essential (12.12) ... Setting up r-cran-rcpparmadillo (15.6.2-1-1) ... Setting up r-cran-lazyeval (0.2.3-1) ... Setting up r-cran-tzdb (0.5.0-1) ... Setting up r-cran-globals (0.19.1-2) ... Setting up r-cran-rcurl (1.98-1.20+dfsg-1) ... Setting up python3-htseq (2.0.9+dfsg-1+b4) ... Setting up r-cran-vctrs (0.7.3-2) ... Setting up libgtk-3-common (3.24.52-3) ... Setting up r-cran-rcppeigen (0.3.4.0.2-1) ... Setting up python3-referencing (0.37.0+~2025.1.1-3) ... Setting up r-cran-pillar (1.11.1+dfsg-1) ... Setting up libncbi-ngs3:amd64 (3.4.1+dfsg-2) ... Setting up gsettings-desktop-schemas (51.0-2) ... Setting up r-cran-pheatmap (1.0.13-1) ... Setting up r-cran-minqa (1.2.8-1) ... Setting up r-cran-openssl (2.4.2+dfsg-1) ... Setting up libngs-jni:amd64 (3.4.1+dfsg-2) ... Setting up r-bioc-biocgenerics (0.58.1-2) ... Setting up r-cran-stringr (1.6.0-1) ... Setting up r-cran-class (7.3-24-1) ... Setting up r-cran-modelmetrics (1.2.2.2-2) ... Setting up r-bioc-matrixgenerics (1.24.0-1) ... Setting up python3-rich (15.0.0-2) ... Setting up python3-pulp (2.7.0+dfsg-5) ... Setting up r-cran-matrixmodels (0.5-4-2) ... Setting up r-cran-ggplot2 (4.0.3+dfsg-1) ... Setting up r-cran-ggsignif (0.6.4-2) ... Setting up cutadapt (4.7-2) ... Setting up r-bioc-rhtslib (3.8.0+dfsg-1) ... Setting up r-cran-sparsevctrs (0.3.6-2) ... Setting up r-cran-tibble (3.3.1+dfsg-2) ... Setting up r-cran-clock (0.7.4-2) ... Setting up r-cran-fontawesome (0.5.3-2) ... Setting up r-cran-survival (3.8-12-1) ... Setting up r-cran-ggsci (5.2.0-1) ... Setting up r-cran-rdpack (2.6.6-1) ... Setting up r-cran-future (1.75.0+dfsg-1) ... Setting up r-cran-jquerylib (0.1.4+dfsg-6) ... Setting up r-cran-tidyselect (1.2.1+dfsg-3) ... Setting up r-cran-reshape2 (1.4.5-1) ... Setting up r-bioc-biobase (2.72.0-1) ... Setting up r-cran-future.apply (1.20.2+dfsg-1) ... Setting up r-cran-timechange (0.4.0-1) ... Setting up r-cran-httr (1.4.9+dfsg-1) ... Setting up r-bioc-s4vectors (0.50.3+dfsg-1) ... Setting up r-cran-gridextra (2.3.1-1) ... Setting up r-cran-memoise (2.0.1-2) ... Setting up r-cran-lava (1.9.3+dfsg-1) ... Setting up r-cran-promises (1.5.0+dfsg-3) ... Setting up r-cran-purrr (1.2.2-1) ... Setting up r-cran-e1071 (1.7-17-1) ... Setting up r-cran-ggrepel (0.9.8-1) ... Setting up r-bioc-tximport (1.40.0+dfsg-1) ... Setting up python3-rich-click (1.9.9-1) ... Setting up r-cran-hardhat (1.4.3+dfsg-1) ... Setting up r-cran-sass (0.4.10+dfsg-3) ... Setting up r-cran-dplyr (1.2.1-2) ... Setting up r-bioc-iranges (2.46.0-1) ... Setting up r-cran-forecast (9.0.2-2) ... Setting up r-cran-reformulas (0.4.4-1) ... Setting up libngs-java:amd64 (3.4.1+dfsg-2) ... Setting up python3-jsonschema-specifications (2025.9.1-1) ... Setting up r-cran-restfulr (0.0.17-1) ... Setting up r-cran-cowplot (1.2.0+dfsg-1) ... Setting up r-cran-lubridate (1.9.5+dfsg-2) ... Setting up r-cran-prodlim (2026.03.11-1) ... Setting up r-bioc-s4arrays (1.12.1+dfsg-1) ... Setting up r-bioc-ucsc.utils (1.8.0+dfsg-1) ... Setting up trim-galore (0.6.10-1) ... Setting up r-cran-httpuv (1.6.17+dfsg-1) ... Setting up r-cran-rpart (4.1.27-1) ... Setting up r-bioc-biocio (1.22.0+dfsg-1) ... Setting up r-bioc-seqinfo (1.2.0+dfsg-1) ... Setting up r-cran-ipred (0.9-16-1) ... Setting up r-cran-lme4 (2.0-6-1) ... Setting up r-bioc-genomeinfodb (1.48.0+dfsg-1) ... Setting up r-cran-bslib (0.10.0+dfsg-1) ... Setting up python3-jsonschema (4.26.0-3) ... Setting up r-cran-tidyr (1.3.2-3) ... Setting up r-cran-recipes (1.3.3+dfsg-2) ... Setting up r-bioc-xvector (0.52.0-1) ... Setting up r-bioc-sparsearray (1.12.3+dfsg-1) ... Setting up r-bioc-genomicranges (1.64.0+dfsg-1) ... Setting up r-bioc-biostrings (2.80.2+dfsg-1) ... Setting up r-cran-caret (7.0-1+dfsg-2) ... Setting up r-cran-shiny (1.13.0+dfsg-1) ... Setting up python3-nbformat (5.10.4-3) ... Setting up r-cran-shinyjs (2.1.1-1) ... Setting up r-cran-miniui (0.1.2-1) ... Setting up r-cran-broom (1.0.13+dfsg-2) ... Setting up r-cran-rmarkdown (2.31+dfsg-1) ... Setting up r-cran-conquer (1.3.3-1) ... Setting up python3-plotly (5.20.0+dfsg-1.1) ... Setting up r-bioc-cigarillo (1.2.1+dfsg-1) ... Setting up r-cran-crosstalk (1.2.2+dfsg-1) ... Setting up r-bioc-delayedarray (0.38.2+dfsg-1) ... Setting up r-bioc-summarizedexperiment (1.42.0+dfsg-1) ... Setting up r-cran-quantreg (6.1-1) ... Setting up r-cran-modelr (0.1.11-3) ... Setting up r-cran-htmlwidgets (1.6.4+dfsg-2) ... Setting up r-cran-colourpicker (1.3.0+dfsg-2) ... Setting up r-cran-doby (4.7.2-2) ... Setting up r-cran-dt (0.34.0+dfsg-1) ... Setting up r-cran-plotly (4.12.1+dfsg-1) ... Setting up r-cran-pbkrtest (0.5.5-2) ... Setting up r-cran-car (3.1-5-1) ... Setting up r-cran-gprofiler2 (0.2.4+dfsg-1) ... Setting up r-cran-rstatix (1.1.0-1) ... Setting up r-cran-ggpubr (1.0.0-1) ... Setting up libheif-plugin-dav1d:amd64 (1.23.6-2) ... Setting up libheif-plugin-libde265:amd64 (1.23.6-2) ... Setting up libboost-regex1.92-dev:amd64 (1.92.0-4) ... Setting up libheif1:amd64 (1.23.6-2) ... Setting up python3-fonttools (4.65.0-1) ... Setting up libboost1.92-dev:amd64 (1.92.0-4) ... Setting up librsvg2-2:amd64 (2.63.2+dfsg-1) ... Setting up glycin-thumbnailers (2.2.3+ds-1) ... Setting up python3-ufolib2 (0.18.1+dfsg1-2) ... Setting up libboost-dev:amd64 (1.92.0.1) ... Setting up glycin-loaders (2.2.3+ds-1) ... Setting up libglycin-2-0:amd64 (2.2.3+ds-1) ... Setting up r-cran-bh (1.90.0-1) ... Setting up python3-matplotlib (3.10.9+dfsg1-2) ... Setting up r-bioc-biocparallel (1.46.0-1) ... Setting up r-bioc-deseq2 (1.52.0+dfsg-1) ... Setting up r-bioc-rsamtools (2.28.0+dfsg-1+b1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.44.8+dfsg-1) ... Setting up r-bioc-genomicalignments (1.48.0+dfsg-1) ... Setting up r-bioc-rtracklayer (1.72.0+ds-1+b1) ... Setting up multiqc (1.21+dfsg-4) ... /usr/lib/python3/dist-packages/multiqc/modules/flash/flash.py:200: SyntaxWarning: 'return' in a 'finally' block return nameddata Setting up gtk-update-icon-cache (4.24.1+ds-1) ... Setting up adwaita-icon-theme (51.0-1) ... 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 libgtk-3-0t64:amd64 (3.24.52-3) ... Processing triggers for procps (2:4.0.7-1) ... Processing triggers for libc-bin (2.43-7) ... Processing triggers for systemd (262.1-1) ... Processing triggers for ca-certificates-java (20260311) ... 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: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_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: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_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_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:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_BR_Root_CA_2_2023.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_2_2023.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_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.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:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GTS_Root_R1.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_-_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_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_Server_Root_ECC_G1.pem Adding debian:OISTE_Server_Root_RSA_G1.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_G3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SECOM_TLS_ECC_Root_CA_2024.pem Adding debian:SECOM_TLS_RSA_Root_CA_2024.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_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_RSA_TLS_Root_CA_2022_-_1.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_CYBER_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem Adding debian:Telia_EC_TLS_Root_CA_v3.pem Adding debian:Telia_RSA_TLS_Root_CA_v3.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:TrustAsia_TLS_ECC_Root_CA.pem Adding debian:TrustAsia_TLS_RSA_Root_CA.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:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:e-Szigno_TLS_Root_CA_2023.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-25-jre:amd64 (25.0.5~7ea-2) ... Setting up default-jre-headless (2:1.25-77) ... Setting up default-jre (2:1.25-77) ... Setting up junit4 (4.13.2-6) ... Setting up libjson-java (3.2.0+dfsg-2) ... Setting up libhtsjdk-java (5.0.0+dfsg-2) ... Setting up fastqc (0.12.1+dfsg-4) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up docutils-common (0.23+dfsg-2) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up python3-docutils (0.23+dfsg-2) ... Setting up snakemake (7.32.4-12) ... Setting up python3-sphinx (9.1.0-9) ... Setting up python3-numpydoc (1.9.0-2) ... Setting up python3-deeptools (3.5.6+dfsg-1) ... Setting up piuparts-depends-dummy (0.invalid.0) ... Processing triggers for ca-certificates (20260816) ... 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 (20260311) ... done. 3m42.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb'] 3m42.1s INFO: Installation of ['./tmp/piuparts-depends-dummy.deb'] ok 3m42.1s DEBUG: Removing /srv/piuparts.debian.org/tmp/tmp0x7el_gg/./tmp/piuparts-depends-dummy.deb 3m42.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 3m42.2s DUMP: piuparts-depends-dummy install ok installed 3m42.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 3m42.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', 'piuparts-depends-dummy'] 3m42.6s DUMP: (Reading database ... 102101 files and directories currently installed.) Removing piuparts-depends-dummy (0.invalid.0) ... 3m42.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', 'piuparts-depends-dummy'] 3m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'clean'] 3m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'clean'] 3m42.8s DEBUG: Recording chroot state 3m46.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 3m51.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 4m0.3s ERROR: WARN: Broken symlinks: /etc/vconsole.conf -> default/keyboard /etc/default/locale -> ../locale.conf /usr/lib/jvm/java-25-openjdk-amd64/lib/libatk-wrapper.so -> ../../../x86_64-linux-gnu/jni/libatk-wrapper.so 4m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy'] 4m4.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 4m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy'] 4m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy', 'pigx-rnaseq'] 4m4.1s DUMP: pigx-rnaseq: Installed: (none) Candidate: 0.1.1-4 Version table: 0.1.1-4 500 500 http://deb.debian.org/debian sid/main amd64 Packages 4m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy', 'pigx-rnaseq'] 4m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', 'install', 'pigx-rnaseq=0.1.1-4'] 4m6.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following NEW packages will be installed: pigx-rnaseq 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 61.1 kB of archives. After this operation, 179 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 pigx-rnaseq all 0.1.1-4 [61.1 kB] Fetched 61.1 kB in 0s (307 kB/s) Selecting previously unselected package pigx-rnaseq. (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 ... 102101 files and directories currently installed.) Preparing to unpack .../pigx-rnaseq_0.1.1-4_all.deb ... Unpacking pigx-rnaseq (0.1.1-4) ... Setting up pigx-rnaseq (0.1.1-4) ... 4m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', 'install', 'pigx-rnaseq=0.1.1-4'] 4m6.2s INFO: Running scripts post_install 4m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_install_exceptions'] 4m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_install_exceptions'] 4m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'systemd-tmpfiles', '--cat-config'] 4m6.2s DUMP: # /usr/lib/tmpfiles.d/20-systemd-osc-context.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. L$ /etc/profile.d/80-systemd-osc-context.sh - - - - /usr/lib/systemd/profile.d/80-systemd-osc-context.sh # /usr/lib/tmpfiles.d/20-systemd-shell-extra.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. L$ /etc/profile.d/70-systemd-shell-extra.sh - - - - /usr/lib/systemd/profile.d/70-systemd-shell-extra.sh # /usr/lib/tmpfiles.d/20-systemd-ssh-generator.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. L$ /etc/ssh/ssh_config.d/20-systemd-ssh-proxy.conf - - - - /usr/lib/systemd/ssh_config.d/20-systemd-ssh-proxy.conf d /run/sshd 0755 # /usr/lib/tmpfiles.d/20-systemd-stub.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Copy systemd-stub provided metadata such as PCR signature and public key file # from initrd into /run/, so that it will survive the initrd stage C /run/systemd/stub/profile 0444 root root - /.extra/profile C /run/systemd/stub/os-release 0444 root root - /.extra/os-release C /run/systemd/stub/boot-secret 0400 root root - /.extra/boot-secret C /run/systemd/tpm2-pcr-signature.json 0444 root root - /.extra/tpm2-pcr-signature.json C /run/systemd/tpm2-pcr-public-key.pem 0444 root root - /.extra/tpm2-pcr-public-key.pem # /usr/lib/tmpfiles.d/20-systemd-varlink.conf # SPDX-License-Identifier: LGPL-2.1-or-later # See tmpfiles.d(5) for details. # Varlink AF_UNIX entrypoint socket inodes of relevant system services may be # linked into this directory, to make them "well-known". Typically, tools such # as the Varlink HTTP bridge expose services linked in here as public # interfaces. The symlink should be named after the Varlink interface to # expose. Interfaces that may be implemented by multiple services (such as # the generic "io.systemd.service") should not be symlinked here. d /run/varlink/registry/ 0755 root root # Socket activated services should use Symlinks= in the .socket unit file to # create these symlinks. If that's not applicable, consider creating the # symlinks via a tmpfiles.d/ snippet, like we do here, so that registration can # be influenced by the administrator. L /run/varlink/registry/io.systemd.Unit - - - - ../../systemd/io.systemd.Manager L /run/varlink/registry/io.systemd.Manager - - - - ../../systemd/io.systemd.Manager L /run/varlink/registry/io.systemd.Journal - - - - ../../systemd/journal/io.systemd.journal # /usr/lib/tmpfiles.d/credstore.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. d /etc/credstore 0700 root root d /etc/credstore.encrypted 0700 root root z /run/credstore 0700 root root z /run/credstore.encrypted 0700 root root # /usr/lib/tmpfiles.d/dbus.conf # Fields: type; path; mode; uid; gid; age; argument (symlink target) # Make ${localstatedir}/lib/dbus (required for systemd < 237) # Adjust mode and ownership if it already exists. d /var/lib/dbus 0755 - - - # Make ${localstatedir}/lib/dbus/machine-id a symlink to /etc/machine-id # if it does not already exist L /var/lib/dbus/machine-id - - - - /etc/machine-id # /usr/lib/tmpfiles.d/debian.conf # This file is part of the debianisation of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU General Public License as published by # the Free Software Foundation; either version 2 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details # Type Path Mode UID GID Age Argument L /run/shm - - - - /dev/shm d /run/sendsigs.omit.d 0755 root root - d /run/lock 1777 root root - - L+ /etc/mtab - - - - ../proc/self/mounts L+ /etc/default/locale - - - - ../locale.conf L+ /etc/vconsole.conf - - - - default/keyboard C! /etc/nsswitch.conf - - - - C! /etc/pam.d - - - - C! /etc/issue - - - - # /usr/lib/tmpfiles.d/home.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. Q /home 0755 - - - q /srv 0755 - - - # /usr/lib/tmpfiles.d/journal-nocow.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Set the NOCOW attribute for directories of journal files. This flag # is inherited by their new files and sub-directories. Matters only # for btrfs filesystems. # # WARNING: Enabling the NOCOW attribute improves journal performance # substantially, but also disables the btrfs checksum logic. In # btrfs RAID filesystems the checksums are needed for rebuilding # corrupted files. Without checksums such rebuilds are not # possible. # # In a single-disk filesystem (or a filesystem without redundancy) # enabling the NOCOW attribute for journal files is safe, because # they have their own checksums and a rebuilding wouldn't be possible # in any case. h /var/log/journal - - - - +C h /var/log/journal/%m - - - - +C h /var/log/journal/remote - - - - +C # /usr/lib/tmpfiles.d/passwd.conf # If a password operation is in progress and we lose power, stale lockfiles # can be left behind. Clear them on boot. r! /etc/gshadow.lock r! /etc/shadow.lock r! /etc/passwd.lock r! /etc/group.lock r! /etc/subuid.lock r! /etc/subgid.lock # /usr/lib/tmpfiles.d/provision.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Provision additional login messages from credentials, if they are set. Note # that these lines are NOPs if the credentials are not set or if the files # already exist. f^ /etc/motd.d/50-provision.conf - - - - login.motd f^ /etc/issue.d/50-provision.conf - - - - login.issue # Provision a /etc/hosts file from credentials. f^ /etc/hosts - - - - network.hosts # Provision SSH key for root d- /root :0700 root :root - d- /root/.ssh :0700 root :root - f^ /root/.ssh/authorized_keys :0600 root :root - ssh.authorized_keys.root # /usr/lib/tmpfiles.d/systemd-network.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. d$ /run/systemd/netif 0755 systemd-network systemd-network - d$ /run/systemd/netif/links 0755 systemd-network systemd-network - d$ /run/systemd/netif/leases 0755 systemd-network systemd-network - d$ /var/lib/systemd/network 0755 systemd-network systemd-network - # /usr/lib/tmpfiles.d/systemd-nologin.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5), systemd-user-sessions.service(8) and pam_nologin(8). f+! /run/nologin 0644 - - - "System is booting up. Unprivileged users are not permitted to log in yet. Please come back later. For technical details, see pam_nologin(8)." # /usr/lib/tmpfiles.d/systemd-pstore.conf # SPDX-License-Identifier: LGPL-2.1-or-later # # The systemd-pstore.service(1) archives the contents of /sys/fs/pstore # upon boot so that there is room for a subsequent dump. This service # is enabled with: # systemctl enable systemd-pstore # # With the service enabled, the kernel still needs to be configured # to write data into the pstore. The kernel has two parameters, # crash_kexec_post_notifiers and printk.always_kmsg_dump, that # control writes into pstore. # # The crash_kexec_post_notifiers parameter enables the kernel to write # dmesg (including stack trace) into pstore upon a panic even if kdump # is loaded, only needed if you want to use pstore with kdump. Without # this parameter, kdump could block writing to pstore for stability # reason. Note this increases the risk of kdump failure even if pstore # is not available. # # The printk.always_kmsg_dump parameter enables the kernel to write dmesg # upon a normal shutdown (shutdown, reboot, halt). # # To configure the kernel parameters, uncomment the appropriate # lines below. The value written is either 'Y' to enable the # kernel parameter, or 'N' to disable the kernel parameter. # # After making a change to this file, do: # systemd-tmpfiles --create path/to/tmpfiles.d/systemd-pstore.conf # # These changes are automatically applied on future re-boots. d /var/lib/systemd/pstore 0755 root root 14d #w- /sys/module/printk/parameters/always_kmsg_dump - - - - Y #w- /sys/module/kernel/parameters/crash_kexec_post_notifiers - - - - Y # /usr/lib/tmpfiles.d/systemd-tmp.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Exclude namespace mountpoints created with PrivateTmp=yes x /tmp/systemd-private-%b-* X /tmp/systemd-private-%b-*/tmp x /var/tmp/systemd-private-%b-* X /var/tmp/systemd-private-%b-*/tmp # Remove top-level private temporary directories on each boot R! /tmp/systemd-private-* R! /var/tmp/systemd-private-* # Handle lost systemd-coredump temp files. They could be lost on old filesystems, # for example, after hard reboot. x /var/lib/systemd/coredump/.#core*.%b* r! /var/lib/systemd/coredump/.#* # /usr/lib/tmpfiles.d/systemd.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. d /run/user 0755 root root - d /run/systemd/ask-password 0755 root root - d$ /run/systemd/seats 0755 root root - d$ /run/systemd/sessions 0755 root root - d$ /run/systemd/users 0755 root root - d /run/systemd/machines 0755 root root - d$ /run/systemd/shutdown 0755 root root - d /run/systemd/dissect-root 0000 root root - d /run/systemd/report.sign 0700 root root - d /run/log 0755 root root - z /run/log/journal 2755 root systemd-journal - - Z /run/log/journal/%m ~2750 root systemd-journal - - a+ /run/log/journal - - - - d:group::r-x,d:group:adm:r-x,group::r-x,group:adm:r-x A+ /run/log/journal/%m - - - - d:group:adm:r-x,group:adm:r-X z /var/log/journal 2755 root systemd-journal - - z /var/log/journal/%m 2755 root systemd-journal - - z /var/log/journal/%m/system.journal 0640 root systemd-journal - - a+ /var/log/journal - - - - d:group::r-x,d:group:adm:r-x,group::r-x,group:adm:r-x a+ /var/log/journal/%m - - - - d:group:adm:r-x,group:adm:r-x a+ /var/log/journal/%m/system.journal - - - - group:adm:r-- d /var/lib/systemd 0755 root root - d /var/lib/systemd/coredump 0755 root root 2w # Files and directories in /var/lib/systemd/ephemeral-trees are locked by pid 1 to prevent tmpfiles from # removing them, and tmpfiles is told to clean up anything in /var/lib/systemd/ephemeral-trees that isn't # locked unconditionally. d /var/lib/systemd/ephemeral-trees 0755 root root 0 d /var/lib/private 0700 root root - d /var/log/private 0700 root root - d /var/cache/private 0700 root root - # /usr/lib/tmpfiles.d/tmp.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Clear tmp directories separately, to make them easier to override q /tmp 1777 root root 10d q /var/tmp 1777 root root 30d # /usr/lib/tmpfiles.d/var.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. q /var 0755 - - - L /var/run - - - - ../run d /var/log 0755 - - - d /var/cache 0755 - - - d /var/lib 0755 - - - d /var/spool 0755 - - - # /usr/lib/tmpfiles.d/x11.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Make sure these are created by default so that nobody else can # or empty them at startup D /tmp/.X11-unix 1777 root root 1h D /tmp/.ICE-unix 1777 root root 1h D /tmp/.XIM-unix 1777 root root 1h D /tmp/.font-unix 1777 root root 1h # Unlink the X11 lock files at boot, but exclude them from time-based cleanup later r! /tmp/.X[0-9]*-lock x /tmp/.X[0-9]*-lock 4m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'systemd-tmpfiles', '--cat-config'] 4m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'remove', 'pigx-rnaseq'] 4m8.0s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following packages were automatically installed and are no longer required: adwaita-icon-theme at-spi2-common bubblewrap ca-certificates-java coinor-cbc coinor-libcbc3.1 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 cutadapt dconf-gsettings-backend dconf-service default-jre default-jre-headless docutils-common fastp fastqc fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-font-awesome-legacy fonts-glyphicons-halflings fonts-lyx fonts-mathjax glycin-loaders glycin-thumbnailers gsettings-desktop-schemas gtk-update-icon-cache hicolor-icon-theme hisat2 java-common javascript-common junit4 libabsl20260526 libaom3 libapache-pom-java libasound2-data libasound2t64 libatk-bridge2.0-0t64 libatk1.0-0t64 libatspi2.0-0t64 libavahi-client3 libavahi-common-data libavahi-common3 libavif16 libbigwig0t64 libblas3 libboost-dev libboost-filesystem1.92.0 libboost-iostreams1.92.0 libboost-program-options1.92.0 libboost-regex1.92-dev libboost-regex1.92.0 libboost1.92-dev libcairo-gobject2 libcairo2 libcap2 libcloudproviders0 libcolord2 libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-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 libdatrie1 libdav1d7 libdconf1 libde265-0 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm2 libedit2 libepoxy0 libezmorph-java libfindbin-libs-perl libfontconfig1 libfreetype6 libfribidi0 libgav1-2 libgbm1 libgcrypt20 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgl1 libgl1-mesa-dri libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libglycin-2-0 libgpg-error0 libgraphite2-3 libgtk-3-0t64 libgtk-3-common libhamcrest-java libharfbuzz-subset0 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libhts3t64 libhtscodecs2 libhtsjdk-java libhwloc15 libhwy1t64 libice6 libicu78 libimagequant0 libisal2 libjaxen-java libjbig0 libjbzip2-java libjemalloc2 libjpeg62-turbo libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables libjs-jquery-datatables-extensions libjs-jquery-metadata libjs-jquery-selectize.js libjs-jquery-tablesorter libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js libjs-sphinxdoc libjs-twitter-bootstrap-datepicker libjson-java libjson-perl libjxl0.11 liblapack3 liblcms2-2 liblerc4 libllvm22 liblog4j1.2-java liblua5.4-0 libmbedcrypto16 libmbedtls21 libmbedx509-7 libncbi-ngs3 libncbi-vdb3 libncurses6 libngs-java libngs-jni libnlopt1 libnspr4 libnss3 libnuma1 libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpciaccess0 libpcsclite1 libpixman-1-0 libpng16-16t64 libpython3-stdlib libpython3.14 libpython3.14-minimal libpython3.14-stdlib libqhull-r8.0 libraqm0 librav1e0.8 libreadline8t64 librhino-java librsvg2-2 libsensors-config libsensors5 libsharpyuv0 libslf4j-java libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libstaden-read14t64 libsvtav1enc4 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libuv1t64 libvulkan1 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2-16 libxom-java libxrandr2 libxrender1 libxres1 libxshmfence1 libxslt1.1 libxss1 libxt6t64 libxtst6 libxxf86vm1 libyaml-0-2 libyuv0 libz3-4 libzopfli1 media-types megadepth mesa-libgallium multiqc ncbi-vdb-data node-bootstrap-sass node-html5shiv node-normalize.css openjdk-25-jre openjdk-25-jre-headless pandoc pandoc-data pci.ids pigz python-babel-localedata python-matplotlib-data python3 python3-alabaster python3-attr python3-babel python3-brotli python3-certifi python3-chardet python3-charset-normalizer python3-click python3-coloredlogs python3-colormath python3-configargparse python3-connection-pool python3-contourpy python3-cutadapt python3-cycler python3-dateutil python3-datrie python3-decorator python3-deeptools python3-deeptoolsintervals python3-defusedxml python3-dnaio python3-docutils python3-dpath python3-fastjsonschema python3-fonttools python3-git python3-gitdb python3-htseq python3-humanfriendly python3-humanize python3-idna python3-imagesize python3-jinja2 python3-jsonschema python3-jsonschema-specifications python3-jupyter-core python3-kiwisolver python3-linkify-it python3-lxml python3-lz4 python3-lzstring python3-markdown python3-markdown-it python3-markupsafe python3-matplotlib python3-mdurl python3-minimal python3-mpmath python3-nbformat python3-networkx python3-numpy python3-numpy-dev python3-numpydoc python3-packaging python3-pil python3-pil.imagetk python3-plac python3-platformdirs python3-plotly python3-psutil python3-pulp python3-py2bit python3-pyaml-env python3-pybigwig python3-pygments python3-pyparsing python3-pysam python3-pytz python3-referencing python3-requests python3-retry python3-rich python3-rich-click python3-roman-numerals python3-rpds-py python3-scipy python3-smart-open python3-smmap python3-snowballstemmer python3-spectra python3-sphinx python3-stopit python3-sympy python3-tabulate python3-tenacity python3-throttler python3-tk python3-toposort python3-traitlets python3-uc-micro python3-ufolib2 python3-uharfbuzz python3-urllib3 python3-wrapt python3-xopen python3-yaml python3-yte python3-zopfli python3.14 python3.14-minimal python3.14-tk r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-cigarillo r-bioc-delayedarray r-bioc-deseq2 r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-seqinfo r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-tximport r-bioc-ucsc.utils r-bioc-xvector r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh r-cran-bitops r-cran-boot r-cran-broom r-cran-bslib r-cran-cachem r-cran-car r-cran-cardata r-cran-caret r-cran-class r-cran-cli r-cran-clock r-cran-codetools r-cran-colorspace r-cran-colourpicker r-cran-commonmark r-cran-conquer r-cran-corrplot r-cran-cowplot r-cran-cpp11 r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-data.table r-cran-deriv r-cran-diagram r-cran-digest r-cran-doby r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-evaluate r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-foreach r-cran-forecast r-cran-formatr r-cran-formula r-cran-fracdiff r-cran-fs r-cran-futile.logger r-cran-futile.options r-cran-future r-cran-future.apply r-cran-generics r-cran-ggplot2 r-cran-ggpubr r-cran-ggrepel r-cran-ggsci r-cran-ggsignif r-cran-globals r-cran-glue r-cran-gower r-cran-gprofiler2 r-cran-gridextra r-cran-gtable r-cran-hardhat r-cran-highr r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-ipred r-cran-isoband r-cran-iterators r-cran-jquerylib r-cran-jsonlite r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lava r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lme4 r-cran-lmtest r-cran-locfit r-cran-lubridate r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-microbenchmark r-cran-mime r-cran-miniui r-cran-minqa r-cran-modelmetrics r-cran-modelr r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-otel r-cran-parallelly r-cran-pbkrtest r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plotly r-cran-plyr r-cran-polynom r-cran-proc r-cran-prodlim r-cran-progressr r-cran-promises r-cran-proxy r-cran-purrr r-cran-quantreg r-cran-r6 r-cran-rappdirs r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcurl r-cran-rdpack r-cran-recipes r-cran-reformulas r-cran-reshape2 r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstatix r-cran-s7 r-cran-sass r-cran-scales r-cran-shape r-cran-shiny r-cran-shinyjs r-cran-snow r-cran-sourcetools r-cran-sparsem r-cran-sparsevctrs r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tzdb r-cran-urca r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml r-cran-zoo r-pkg-team-core-architecture readline-common salmon samtools sgml-base shared-mime-info snakemake sphinx-common trim-galore unicode-data unzip user-session-migration x11-common xdg-utils xkb-data xml-core zip Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: pigx-rnaseq 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. After this operation, 179 kB 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 ... 102128 files and directories currently installed.) Removing pigx-rnaseq (0.1.1-4) ... 4m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'remove', 'pigx-rnaseq'] 4m8.0s INFO: Reinstalling after remove 4m8.0s INFO: Running scripts pre_install 4m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_database-server'] 4m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_database-server'] 4m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_exceptions'] 4m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_exceptions'] 4m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_extras'] 4m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_extras'] 4m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture'] 4m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture'] 4m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture_i386'] 4m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture_i386'] 4m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy'] 4m8.1s 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: 4m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy'] 4m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy', 'pigx-rnaseq'] 4m8.1s DUMP: pigx-rnaseq: Installed: (none) Candidate: 0.1.1-4 Version table: 0.1.1-4 500 500 http://deb.debian.org/debian sid/main amd64 Packages 4m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy', 'pigx-rnaseq'] 4m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', 'install', 'pigx-rnaseq=0.1.1-4'] 4m9.6s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following NEW packages will be installed: pigx-rnaseq 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/61.1 kB of archives. After this operation, 179 kB of additional disk space will be used. Selecting previously unselected package pigx-rnaseq. (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 ... 102101 files and directories currently installed.) Preparing to unpack .../pigx-rnaseq_0.1.1-4_all.deb ... Unpacking pigx-rnaseq (0.1.1-4) ... Setting up pigx-rnaseq (0.1.1-4) ... 4m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', 'install', 'pigx-rnaseq=0.1.1-4'] 4m9.6s INFO: Running scripts post_install 4m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_install_exceptions'] 4m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_install_exceptions'] 4m9.6s INFO: Running scripts pre_install 4m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_database-server'] 4m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_database-server'] 4m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_exceptions'] 4m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_exceptions'] 4m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_extras'] 4m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_extras'] 4m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture'] 4m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture'] 4m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture_i386'] 4m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_install_foreign_architecture_i386'] 4m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy'] 4m9.7s 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: 4m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy'] 4m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy', 'pigx-rnaseq'] 4m9.7s DUMP: pigx-rnaseq: Installed: 0.1.1-4 Candidate: 0.1.1-4 Version table: *** 0.1.1-4 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 4m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-cache', 'policy', 'pigx-rnaseq'] 4m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', 'install', '--reinstall', 'pigx-rnaseq=0.1.1-4'] 4m11.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... 0 upgraded, 0 newly installed, 1 reinstalled, 0 to remove and 0 not upgraded. Need to get 0 B/61.1 kB of archives. After this operation, 0 B of additional disk space will be used. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 102128 files and directories currently installed.) Preparing to unpack .../pigx-rnaseq_0.1.1-4_all.deb ... Unpacking pigx-rnaseq (0.1.1-4) over (0.1.1-4) ... Setting up pigx-rnaseq (0.1.1-4) ... 4m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', '-y', 'install', '--reinstall', 'pigx-rnaseq=0.1.1-4'] 4m11.3s INFO: Running scripts post_install 4m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_install_exceptions'] 4m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_install_exceptions'] 4m11.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 4m17.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 4m17.7s INFO: IGNORED broken symlink: /etc/vconsole.conf (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 4m17.7s INFO: IGNORED broken symlink: /etc/default/locale (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 4m26.2s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Journal (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 4m26.2s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Manager (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 4m26.2s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Unit (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 4m26.2s ERROR: WARN: Broken symlinks: /usr/lib/jvm/java-25-openjdk-amd64/lib/libatk-wrapper.so -> ../../../x86_64-linux-gnu/jni/libatk-wrapper.so (openjdk-25-jre:amd64) 4m31.3s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', '-ac', '--ignore-obsolete'] 6m5.8s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', '-ac', '--ignore-obsolete'] 6m5.8s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 6m5.9s DUMP: 0.17.5+b5 6m5.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 6m5.9s INFO: Running adequate version 0.17.5+b5 now. 6m5.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'pigx-rnaseq'] 6m6.0s DUMP: pigx-rnaseq: py-file-not-bytecompiled /usr/libexec/pigx_rnaseq/scripts/validate_input.py pigx-rnaseq: py-file-not-bytecompiled /usr/libexec/pigx_rnaseq/snakefile.py 6m6.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'pigx-rnaseq'] 6m6.0s ERROR: WARN: Inadequate results from running adequate! pigx-rnaseq: py-file-not-bytecompiled /usr/libexec/pigx_rnaseq/scripts/validate_input.py pigx-rnaseq: py-file-not-bytecompiled /usr/libexec/pigx_rnaseq/snakefile.py 6m6.0s ERROR: WARN: Running adequate resulted in inadequate tags found: py-file-not-bytecompiled 6m6.0s INFO: Running scripts pre_remove 6m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 6m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 6m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 6m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 6m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 6m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 6m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 6m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 6m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 6m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 6m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_exceptions'] 6m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_exceptions'] 6m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_preseed_cleanup'] 6m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/pre_remove_preseed_cleanup'] 6m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 6m39.1s DUMP: install ok installed adwaita-icon-theme adwaita-icon-theme 51.0-1 install ok installed apt apt 3.3.3 install ok installed at-spi2-common at-spi2-common 2.62.1-1 install ok installed base-files base-files 14.2 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-4 install ok installed binutils binutils 2.47-6 install ok installed binutils-common:amd64 binutils-common 2.47-6 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.47-6 install ok installed bsdutils bsdutils 1:2.42.4-1 install ok installed bubblewrap bubblewrap 0.13.1-1 install ok installed build-essential build-essential 12.12 install ok installed bzip2 bzip2 1.0.8-6+b2 install ok installed ca-certificates ca-certificates 20260816 install ok installed ca-certificates-java ca-certificates-java 20260311 install ok installed coinor-cbc coinor-cbc 2.10.13+ds-1 install ok installed coinor-libcbc3.1:amd64 coinor-libcbc3.1 2.10.13+ds-1 install ok installed coinor-libcgl1:amd64 coinor-libcgl1 0.60.10+ds-1 install ok installed coinor-libclp1:amd64 coinor-libclp1 1.17.10+ds-1+b2 install ok installed coinor-libcoinutils3v5:amd64 coinor-libcoinutils3v5 2.11.12+ds-1+b2 install ok installed coinor-libosi1v5:amd64 coinor-libosi1v5 0.108.11+ds-1+b2 install ok installed coreutils coreutils 9.10-1 install ok installed cpp cpp 4:16.1.0-3 install ok installed cpp-16 cpp-16 16.2.0-3 install ok installed cpp-16-x86-64-linux-gnu cpp-16-x86-64-linux-gnu 16.2.0-3 install ok installed cpp-x86-64-linux-gnu cpp-x86-64-linux-gnu 4:16.1.0-3 install ok installed cutadapt cutadapt 4.7-2 install ok installed dash dash 0.5.12-12 install ok installed dbconfig-common dbconfig-common 2.1.0 install ok installed dbus dbus 1.16.2-8 install ok installed dbus-bin dbus-bin 1.16.2-8 install ok installed dbus-daemon dbus-daemon 1.16.2-8 install ok installed dbus-session-bus-common dbus-session-bus-common 1.16.2-8 install ok installed dbus-system-bus-common dbus-system-bus-common 1.16.2-8 install ok installed dbus-user-session dbus-user-session 1.16.2-8 install ok installed dconf-gsettings-backend:amd64 dconf-gsettings-backend 51.0-2 install ok installed dconf-service dconf-service 51.0-2 install ok installed debconf debconf 1.5.92 install ok installed debian-archive-keyring debian-archive-keyring 2025.1 install ok installed debianutils debianutils 5.24 install ok installed default-jre default-jre 2:1.25-77 install ok installed default-jre-headless default-jre-headless 2:1.25-77 install ok installed diffutils diffutils 1:3.12-1 install ok installed docutils-common docutils-common 0.23+dfsg-2 install ok installed dpkg dpkg 1.23.11 install ok installed dpkg-dev dpkg-dev 1.23.11 install ok installed fastp fastp 1.0.1+dfsg-1 install ok installed fastqc fastqc 0.12.1+dfsg-4 install ok installed findutils findutils 4.11.0-3 install ok installed fontconfig fontconfig 2.17.1-5 install ok installed fontconfig-config fontconfig-config 2.17.1-5 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-9 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-9 install ok installed fonts-font-awesome fonts-font-awesome 7.3.0+dfsg-1 install ok installed fonts-font-awesome-legacy fonts-font-awesome-legacy 6-4 install ok installed fonts-glyphicons-halflings fonts-glyphicons-halflings 1.009~3.4.1+dfsg-7 install ok installed fonts-lyx fonts-lyx 2.5.3-2 install ok installed fonts-mathjax fonts-mathjax 2.7.9+dfsg-1 install ok installed g++ g++ 4:16.1.0-3 install ok installed g++-16 g++-16 16.2.0-3 install ok installed g++-16-x86-64-linux-gnu g++-16-x86-64-linux-gnu 16.2.0-3 install ok installed g++-x86-64-linux-gnu g++-x86-64-linux-gnu 4:16.1.0-3 install ok installed gcc gcc 4:16.1.0-3 install ok installed gcc-16 gcc-16 16.2.0-3 install ok installed gcc-16-base:amd64 gcc-16-base 16.2.0-3 install ok installed gcc-16-x86-64-linux-gnu gcc-16-x86-64-linux-gnu 16.2.0-3 install ok installed gcc-x86-64-linux-gnu gcc-x86-64-linux-gnu 4:16.1.0-3 install ok installed git git 1:2.55.0-1 install ok installed git-man git-man 1:2.55.0-1 install ok installed glycin-loaders glycin-loaders 2.2.3+ds-1 install ok installed glycin-thumbnailers glycin-thumbnailers 2.2.3+ds-1 install ok installed grep grep 3.12-1 install ok installed gsettings-desktop-schemas gsettings-desktop-schemas 51.0-2 install ok installed gtk-update-icon-cache gtk-update-icon-cache 4.24.1+ds-1 install ok installed gzip gzip 1.14-1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.18-2 install ok installed hisat2 hisat2 2.2.1-5+b4 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.69+nmu3 install ok installed java-common java-common 0.77 install ok installed javascript-common javascript-common 12+nmu1 install ok installed junit4 junit4 4.13.2-6 install ok installed libabsl20260526:amd64 libabsl20260526 20260526.0-2+b1 install ok installed libacl1:amd64 libacl1 2.4.0-1 install ok installed libaom3:amd64 libaom3 3.14.1-1 install ok installed libapache-pom-java libapache-pom-java 33-2 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libcommons-collections3-java 3.2.2-4 install ok installed libcommons-collections4-java libcommons-collections4-java 4.6.0-1 install ok installed libcommons-compress-java libcommons-compress-java 1.27.1-2 install ok installed libcommons-io-java libcommons-io-java 2.22.0-1 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang3-java libcommons-lang3-java 3.20.0-1 install ok installed libcommons-logging-java libcommons-logging-java 1.3.0-2 install ok installed libcommons-math3-java libcommons-math3-java 3.6.1-4 install ok installed libcommons-parent-java libcommons-parent-java 56-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.2+20251210-1 install ok installed libctf-nobfd0:amd64 libctf-nobfd0 2.47-6 install ok installed libctf0:amd64 libctf0 2.47-6 install ok installed libcups2t64:amd64 libcups2t64 2.4.20-1 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.23.0-1 install ok installed libcurl4-gnutls:amd64 libcurl4-gnutls 8.23.0-1 install ok installed libcurl4t64:amd64 libcurl4t64 8.23.0-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.14-2 install ok installed libdav1d7:amd64 libdav1d7 1.5.4-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11+b1 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.16.2-8 install ok installed libdconf1:amd64 libdconf1 51.0-2 install ok installed libde265-0:amd64 libde265-0 1.1.3-1+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.283 install ok installed libdeflate0:amd64 libdeflate0 1.25-1 install ok installed libdpkg-perl libdpkg-perl 1.23.11 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.134-3 install ok installed libdrm-common libdrm-common 2.4.134-3 install ok installed libdrm-intel1:amd64 libdrm-intel1 2.4.134-3 install ok installed libdrm2:amd64 libdrm2 2.4.134-3 install ok installed libedit2:amd64 libedit2 3.1-20260512-1 install ok installed libelf1t64:amd64 libelf1t64 0.196-1 install ok installed libepoxy0:amd64 libepoxy0 1.5.10-2+b2 install ok installed liberror-perl liberror-perl 0.17030-1 install ok installed libexpat1:amd64 libexpat1 2.9.0-1 install ok installed libezmorph-java libezmorph-java 1.0.6-4 install ok installed libffi8:amd64 libffi8 3.8.0-2 install ok installed libfindbin-libs-perl libfindbin-libs-perl 4.0.4-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.17.1-5 install ok installed libfreetype6:amd64 libfreetype6 2.14.3+dfsg-3 install ok installed libfribidi0:amd64 libfribidi0 1.0.16-5+b1 install ok installed libgav1-2:amd64 libgav1-2 0.20.0-2+b2 install ok installed libgbm1:amd64 libgbm1 26.2.5-1 install ok installed libgcc-16-dev:amd64 libgcc-16-dev 16.2.0-3 install ok installed libgcc-s1:amd64 libgcc-s1 16.2.0-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.12.4-2 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.26-1+b2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.26-1+b2 install ok installed libgdk-pixbuf-2.0-0:amd64 libgdk-pixbuf-2.0-0 2.44.8+dfsg-1 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.44.8+dfsg-1 install ok installed libgfortran5:amd64 libgfortran5 16.2.0-3 install ok installed libgif7:amd64 libgif7 6.1.3-1 install ok installed libgl1:amd64 libgl1 1.7.0-3+b1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 26.2.5-1 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.90.1-2 install ok installed libglvnd0:amd64 libglvnd0 1.7.0-3+b1 install ok installed libglx-mesa0:amd64 libglx-mesa0 26.2.5-1 install ok installed libglx0:amd64 libglx0 1.7.0-3+b1 install ok installed libglycin-2-0:amd64 libglycin-2-0 2.2.3+ds-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5+b2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.13-1 install ok installed libgomp1:amd64 libgomp1 16.2.0-3 install ok installed libgpg-error0:amd64 libgpg-error0 1.61-5 install ok installed libgprofng0:amd64 libgprofng0 2.47-6 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.15-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.22.1-3 install ok installed libgtk-3-0t64:amd64 libgtk-3-0t64 3.24.52-3 install ok installed libgtk-3-common libgtk-3-common 3.24.52-3 install ok installed libhamcrest-java libhamcrest-java 2.2-2 install ok installed libharfbuzz-subset0:amd64 libharfbuzz-subset0 12.3.2-2+b2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 12.3.2-2+b2 install ok installed libheif-plugin-dav1d:amd64 libheif-plugin-dav1d 1.23.6-2 install ok installed libheif-plugin-libde265:amd64 libheif-plugin-libde265 1.23.6-2 install ok installed libheif1:amd64 libheif1 1.23.6-2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1+b1 install ok installed libhts3t64:amd64 libhts3t64 1.24-3 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.7-1 install ok installed libhtsjdk-java libhtsjdk-java 5.0.0+dfsg-2 install ok installed libhwasan0:amd64 libhwasan0 16.2.0-3 install ok installed libhwloc15:amd64 libhwloc15 2.15.0-2 install ok installed libhwy1t64:amd64 libhwy1t64 1.3.0-5.1 install ok installed libice6:amd64 libice6 2:1.1.1-1+b2 install ok installed libicu78:amd64 libicu78 78.3-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.8-5 install ok installed libimagequant0:amd64 libimagequant0 4.4.1-1+b2 install ok installed libisal2:amd64 libisal2 2.31.1-3 install ok installed libisl23:amd64 libisl23 0.28-1 install ok installed libitm1:amd64 libitm1 16.2.0-3 install ok installed libjansson4:amd64 libjansson4 2.15.1-1 install ok installed libjaxen-java libjaxen-java 1.2.0-1 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b3 install ok installed libjbzip2-java libjbzip2-java 0.9.1-8 install ok installed libjemalloc2:amd64 libjemalloc2 5.3.1-2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:3.1.3-4 install ok installed libjs-bootstrap libjs-bootstrap 3.4.1+dfsg-7 install ok installed libjs-bootstrap4 libjs-bootstrap4 4.6.2+dfsg-3 install ok installed libjs-d3 libjs-d3 3.5.17-4 install ok installed libjs-es5-shim libjs-es5-shim 4.6.7-2 install ok installed libjs-highlight.js libjs-highlight.js 10.7.3+dfsg-6 install ok installed libjs-jquery libjs-jquery 3.7.1+dfsg+~3.5.33-1 install ok installed libjs-jquery-datatables libjs-jquery-datatables 1.11.5+dfsg-2 install ok installed libjs-jquery-datatables-extensions libjs-jquery-datatables-extensions 0.0+git20150910.28fd64e+dfsg-5 install ok installed libjs-jquery-metadata libjs-jquery-metadata 12-4 install ok installed libjs-jquery-selectize.js libjs-jquery-selectize.js 0.12.6+dfsg-1.1 install ok installed libjs-jquery-tablesorter libjs-jquery-tablesorter 1:2.31.3+dfsg1-5 install ok installed libjs-jquery-ui libjs-jquery-ui 1.14.2+dfsg-1 install ok installed libjs-json libjs-json 0~20221030+~1.0.8-1 install ok installed libjs-mathjax libjs-mathjax 2.7.9+dfsg-1 install ok installed libjs-microplugin.js libjs-microplugin.js 0.0.3+dfsg-2 install ok installed libjs-modernizr libjs-modernizr 3.13.0-0.1 install ok installed libjs-popper.js libjs-popper.js 1.16.1+ds-7 install ok installed libjs-prettify libjs-prettify 2015.12.04+dfsg-3 install ok installed libjs-sifter.js libjs-sifter.js 0.6.0+dfsg-3 install ok installed libjs-sphinxdoc libjs-sphinxdoc 9.1.0-9 install ok installed libjs-twitter-bootstrap-datepicker libjs-twitter-bootstrap-datepicker 1.3.1+dfsg1-4.1 install ok installed libjson-java libjson-java 3.2.0+dfsg-2 install ok installed libjson-perl libjson-perl 4.10000-1 install ok installed libjxl0.11:amd64 libjxl0.11 0.11.2-5.1 install ok installed libk5crypto3:amd64 libk5crypto3 1.22.1-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-6+b2 install ok installed libkrb5-3:amd64 libkrb5-3 1.22.1-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.22.1-3 install ok installed liblapack3:amd64 liblapack3 3.12.1-8 install ok installed liblcms2-2:amd64 liblcms2-2 2.19.1-1 install ok installed libldap2:amd64 libldap2 2.6.14+dfsg-2 install ok installed liblerc4:amd64 liblerc4 4.2.0+ds-1 install ok installed libllvm22:amd64 libllvm22 1:22.1.8-3 install ok installed liblog4j1.2-java liblog4j1.2-java 1.2.17-11 install ok installed liblsan0:amd64 liblsan0 16.2.0-3 install ok installed liblua5.4-0:amd64 liblua5.4-0 5.4.9-1 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-10 install ok installed liblzma5:amd64 liblzma5 5.8.4-1 install ok installed libmbedcrypto16:amd64 libmbedcrypto16 3.6.7-3 install ok installed libmbedtls21:amd64 libmbedtls21 3.6.7-3 install ok installed libmbedx509-7:amd64 libmbedx509-7 3.6.7-3 install ok installed libmd0:amd64 libmd0 1.3.0-1 install ok installed libmount1:amd64 libmount1 2.42.4-1 install ok installed libmpc3:amd64 libmpc3 1.3.1-3 install ok installed libmpfr6:amd64 libmpfr6 4.2.2-3 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.4.1+dfsg-2 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.4.1+dfsg-1 install ok installed libncurses6:amd64 libncurses6 6.6+20260608-2 install ok installed libncursesw6:amd64 libncursesw6 6.6+20260608-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.70.0-1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.17.0-1 install ok installed libngs-java:amd64 libngs-java 3.4.1+dfsg-2 install ok installed libngs-jni:amd64 libngs-jni 3.4.1+dfsg-2 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.24.0-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.24.0-1 install ok installed libngtcp2-crypto-ossl0:amd64 libngtcp2-crypto-ossl0 1.24.0-1 install ok installed libnlopt1:amd64 libnlopt1 2.11.0-2 install ok installed libnspr4:amd64 libnspr4 2:4.40-1 install ok installed libnss3:amd64 libnss3 2:3.131-1 install ok installed libnuma1:amd64 libnuma1 2.0.19-1+b2 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.4-1.1 install ok installed libp11-kit0:amd64 libp11-kit0 0.26.5-1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-8 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-8 install ok installed libpam-runtime libpam-runtime 1.7.0-8 install ok installed libpam-systemd:amd64 libpam-systemd 262.1-1 install ok installed libpam0g:amd64 libpam0g 1.7.0-8 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.58.2-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.58.2-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.58.2-1 install ok installed libpaper-utils libpaper-utils 2.2.5-0.4 install ok installed libpaper2:amd64 libpaper2 2.2.5-0.4 install ok installed libpciaccess0:amd64 libpciaccess0 0.19-2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.48-3.1 install ok installed libpcsclite1:amd64 libpcsclite1 2.5.3-1 install ok installed libperl5.42:amd64 libperl5.42 5.42.3-1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.46.4-1+b2 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.59-1 install ok installed libproc2-1:amd64 libproc2-1 2:4.0.7-1 install ok installed libpsl5t64:amd64 libpsl5t64 0.23.3-1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.14.7-3 install ok installed libpython3.14:amd64 libpython3.14 3.14.8-1 install ok installed libpython3.14-minimal:amd64 libpython3.14-minimal 3.14.8-1 install ok installed libpython3.14-stdlib:amd64 libpython3.14-stdlib 3.14.8-1 install ok installed libqhull-r8.0:amd64 libqhull-r8.0 2020.2-9 install ok installed libquadmath0:amd64 libquadmath0 16.2.0-3 install ok installed libraqm0:amd64 libraqm0 0.10.5-1 install ok installed librav1e0.8:amd64 librav1e0.8 0.8.1-12 install ok installed libreadline8t64:amd64 libreadline8t64 8.3-4 install ok installed librhino-java librhino-java 1.7.15.1-0.1 install ok installed librsvg2-2:amd64 librsvg2-2 2.63.2+dfsg-1 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-12 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-12 install ok 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libssh2-1t64:amd64 libssh2-1t64 1.11.1-6 install ok installed libssl3t64:amd64 libssl3t64 3.6.5-1 install ok installed libstaden-read14t64:amd64 libstaden-read14t64 1.15.1-1 install ok installed libstdc++-16-dev:amd64 libstdc++-16-dev 16.2.0-3 install ok installed libstdc++6:amd64 libstdc++6 16.2.0-3 install ok installed libsvtav1enc4:amd64 libsvtav1enc4 4.2.0+dfsg-1 install ok installed libsystemd-shared:amd64 libsystemd-shared 262.1-1 install ok installed libsystemd0:amd64 libsystemd0 262.1-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.21.0-2+b1 install ok installed libtbb12:amd64 libtbb12 2023.1.0-3 install ok installed libtbbbind-2-5:amd64 libtbbbind-2-5 2023.1.0-3 install ok installed libtbbmalloc2:amd64 libtbbmalloc2 2023.1.0-3 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.18+dfsg-1 install ok installed libtext-charwidth-perl:amd64 libtext-charwidth-perl 0.04-12+b1 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-11 install ok installed libthai-data libthai-data 0.1.30-3 install ok installed libthai0:amd64 libthai0 0.1.30-3 install ok installed libtiff6:amd64 libtiff6 4.7.2-1 install ok installed libtinfo6:amd64 libtinfo6 6.6+20260608-2 install ok installed libtirpc-common libtirpc-common 1.3.7+ds-1 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.7+ds-1 install ok installed libtk8.6:amd64 libtk8.6 8.6.18-1 install ok installed libtsan2:amd64 libtsan2 16.2.0-3 install ok installed libubsan1:amd64 libubsan1 16.2.0-3 install ok installed libudev1:amd64 libudev1 262.1-1 install ok installed libunistring5:amd64 libunistring5 1.4.2-1 install ok installed libuuid1:amd64 libuuid1 2.42.4-1 install ok installed libuv1t64:amd64 libuv1t64 1.53.0-1 install ok installed libvulkan1:amd64 libvulkan1 1.4.363.0-1 install ok installed libwayland-client0:amd64 libwayland-client0 1.26.0-1 install ok installed libwayland-cursor0:amd64 libwayland-cursor0 1.26.0-1 install ok installed libwayland-egl1:amd64 libwayland-egl1 1.26.0-1 install ok installed libwebp7:amd64 libwebp7 1.6.0-0.1 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.6.0-0.1 install ok installed libwebpmux3:amd64 libwebpmux3 1.6.0-0.1 install ok installed libx11-6:amd64 libx11-6 2:1.8.13-1 install ok installed libx11-data libx11-data 2:1.8.13-1 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.8.13-1 install ok installed libxau6:amd64 libxau6 1:1.0.11-1+b2 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.17.0-2+b2 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.17.0-2+b2 install ok installed libxcb-present0:amd64 libxcb-present0 1.17.0-2+b2 install ok installed libxcb-randr0:amd64 libxcb-randr0 1.17.0-2+b2 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2+b2 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2+b2 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.17.0-2+b2 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.17.0-2+b2 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b2 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.6-1+b2 install ok installed libxcursor1:amd64 libxcursor1 1:1.2.3-1+b2 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.7-1+b1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-2+b1 install ok installed libxerces2-java libxerces2-java 2.12.2-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b4 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-2+b5 install ok installed libxft2:amd64 libxft2 2.3.6-1+b5 install ok installed libxi6:amd64 libxi6 2:1.8.3-1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-3+b5 install ok installed libxkbcommon0:amd64 libxkbcommon0 1.13.1-1 install ok installed libxml-commons-external-java libxml-commons-external-java 1.4.01-6 install ok installed libxml-commons-resolver1.1-java libxml-commons-resolver1.1-java 1.2-11 install ok installed libxml2-16:amd64 libxml2-16 2.15.4+dfsg-1 install ok installed libxom-java libxom-java 1.4.6-2 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.4-1+b4 install ok installed libxrender1:amd64 libxrender1 1:0.9.12-1+b2 install ok installed libxres1:amd64 libxres1 2:1.2.1-2 install ok installed libxshmfence1:amd64 libxshmfence1 1.3.3-1+b2 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.45-0.1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b4 install ok installed libxt6t64:amd64 libxt6t64 1:1.2.1-1.3+b2 install ok installed libxtst6:amd64 libxtst6 2:1.2.5-1+b2 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-2+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2+b2 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-2+b1 install ok installed libyuv0:amd64 libyuv0 0.0.1974.20261008-1 install ok installed libz3-4:amd64 libz3-4 4.13.3-1.1 install ok installed libzopfli1 libzopfli1 1.0.3-3 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-4 install ok installed linux-libc-dev linux-libc-dev 7.2.11-1 install ok installed login login 1:4.16.0-2+really2.42.4-1 install ok installed login.defs login.defs 1:4.20.3-1 install ok installed make make 4.4.1-3 install ok installed mawk mawk 1.3.4.20260302-2 install ok installed media-types media-types 14.0.0 install ok installed megadepth megadepth 1.2.0-5+b1 install ok installed mesa-libgallium:amd64 mesa-libgallium 26.2.5-1 install ok installed mount mount 2.42.4-1 install ok installed multiqc multiqc 1.21+dfsg-4 install ok installed ncbi-vdb-data ncbi-vdb-data 3.4.1+dfsg-1 install ok installed ncurses-base ncurses-base 6.6+20260608-2 install ok installed ncurses-bin ncurses-bin 6.6+20260608-2 install ok installed netbase netbase 6.6 install ok installed node-bootstrap-sass node-bootstrap-sass 3.4.3-2 install ok installed node-html5shiv node-html5shiv 3.7.3+dfsg-5 install ok installed node-normalize.css node-normalize.css 8.0.1-5.1 install ok installed openjdk-25-jre:amd64 openjdk-25-jre 25.0.5~7ea-2 install ok installed openjdk-25-jre-headless:amd64 openjdk-25-jre-headless 25.0.5~7ea-2 install ok installed openssl openssl 3.6.5-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.6.5-1 install ok installed pandoc pandoc 3.11-1 install ok installed pandoc-data pandoc-data 3.11-1 install ok installed passwd passwd 1:4.20.3-1 install ok installed patch patch 2.8-2 install ok installed pci.ids pci.ids 0.0~2026.09.23-1 install ok installed perl perl 5.42.3-1 install ok installed perl-base perl-base 5.42.3-1 install ok installed perl-modules-5.42 perl-modules-5.42 5.42.3-1 install ok installed pigx-rnaseq pigx-rnaseq 0.1.1-4 install ok installed pigz pigz 2.8-2 install ok installed procps procps 2:4.0.7-1 install ok installed python-babel-localedata python-babel-localedata 2.18.0+git2026-08-12-3 install ok installed python-matplotlib-data python-matplotlib-data 3.10.9+dfsg1-2 install ok installed python3 python3 3.14.7-3 install ok installed python3-alabaster python3-alabaster 1.0.0-2 install ok installed python3-attr python3-attr 26.1.0-1 install ok installed python3-babel python3-babel 2.18.0+git2026-08-12-3 install ok installed python3-brotli python3-brotli 1.2.0-4+b1 install ok installed python3-certifi python3-certifi 2026.7.22+ds-1 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-2 install ok installed python3-charset-normalizer python3-charset-normalizer 3.4.7-2+b1 install ok installed python3-click python3-click 8.3.3-3 install ok installed python3-coloredlogs python3-coloredlogs 15.0.1-2 install ok installed python3-colormath python3-colormath 3.0.0-4 install ok installed python3-configargparse python3-configargparse 1.7-4 install ok installed python3-connection-pool python3-connection-pool 0.0.3-2 install ok installed python3-contourpy python3-contourpy 1.3.3-2+b1 install ok installed python3-cutadapt python3-cutadapt 4.7-2+b5 install ok installed python3-cycler python3-cycler 0.12.1-3 install ok installed python3-dateutil python3-dateutil 2.9.0-5 install ok installed python3-datrie python3-datrie 0.8.3-2+b2 install ok installed python3-decorator python3-decorator 5.3.1-1 install ok installed python3-deeptools python3-deeptools 3.5.6+dfsg-1 install ok installed python3-deeptoolsintervals python3-deeptoolsintervals 0.1.9-3+b13 install ok installed python3-defusedxml python3-defusedxml 0.7.1-3 install ok installed python3-dnaio python3-dnaio 1.2.4-1+b2 install ok installed python3-docutils python3-docutils 0.23+dfsg-2 install ok installed python3-dpath python3-dpath 2.2.0-2 install ok installed python3-fastjsonschema python3-fastjsonschema 2.22.1-1 install ok installed python3-fonttools python3-fonttools 4.65.0-1 install ok installed python3-git python3-git 3.2.1-1 install ok installed python3-gitdb python3-gitdb 4.0.12-2 install ok installed python3-htseq python3-htseq 2.0.9+dfsg-1+b4 install ok installed python3-humanfriendly python3-humanfriendly 10.0-7 install ok installed python3-humanize python3-humanize 4.16.0-1 install ok installed python3-idna python3-idna 3.20-1 install ok installed python3-imagesize python3-imagesize 2.0.1-1 install ok installed python3-jinja2 python3-jinja2 3.1.6-4 install ok installed python3-jsonschema python3-jsonschema 4.26.0-3 install ok installed python3-jsonschema-specifications python3-jsonschema-specifications 2025.9.1-1 install ok installed python3-jupyter-core python3-jupyter-core 5.9.1-1 install ok installed python3-kiwisolver python3-kiwisolver 1.5.1-1 install ok installed python3-linkify-it python3-linkify-it 2.2.0-1 install ok installed python3-lxml:amd64 python3-lxml 6.1.3-1 install ok installed python3-lz4 python3-lz4 4.4.5+dfsg-1+b1 install ok installed python3-lzstring python3-lzstring 1.0.4-3 install ok installed python3-markdown python3-markdown 3.10.3-1 install ok installed python3-markdown-it python3-markdown-it 4.2.0-4 install ok installed python3-markupsafe python3-markupsafe 3.0.3-2+b1 install ok installed python3-matplotlib python3-matplotlib 3.10.9+dfsg1-2 install ok installed python3-mdurl python3-mdurl 0.1.2-2 install ok installed python3-minimal python3-minimal 3.14.7-3 install ok installed python3-mpmath python3-mpmath 1.4.1-4 install ok installed python3-nbformat python3-nbformat 5.10.4-3 install ok installed python3-networkx python3-networkx 3.4.2-6 install ok installed python3-numpy python3-numpy 1:2.4.6+ds-5 install ok installed python3-numpy-dev:amd64 python3-numpy-dev 1:2.4.6+ds-5 install ok installed python3-numpydoc python3-numpydoc 1.9.0-2 install ok installed python3-packaging python3-packaging 26.2-3 install ok installed python3-pil:amd64 python3-pil 12.3.0-1+b1 install ok installed python3-pil.imagetk:amd64 python3-pil.imagetk 12.3.0-1+b1 install ok installed python3-plac python3-plac 1.4.5-3 install ok installed python3-platformdirs python3-platformdirs 4.11.9-1 install ok installed python3-plotly python3-plotly 5.20.0+dfsg-1.1 install ok installed python3-psutil python3-psutil 7.2.2-2 install ok installed python3-pulp python3-pulp 2.7.0+dfsg-5 install ok installed python3-py2bit python3-py2bit 0.3.3-1+b3 install ok installed python3-pyaml-env python3-pyaml-env 1.2.1-2 install ok installed python3-pybigwig python3-pybigwig 0.3.25+dfsg-1+b1 install ok installed python3-pygments python3-pygments 2.20.0+dfsg-2 install ok installed python3-pyparsing python3-pyparsing 3.3.3-2 install ok installed python3-pysam python3-pysam 0.24.1+ds-2 install ok installed python3-pytz python3-pytz 2026.5-1 install ok installed python3-referencing python3-referencing 0.37.0+~2025.1.1-3 install ok installed python3-requests python3-requests 2.34.2-1 install ok installed python3-retry python3-retry 0.9.2-5 install ok installed python3-rich python3-rich 15.0.0-2 install ok installed python3-rich-click python3-rich-click 1.9.9-1 install ok installed python3-roman-numerals python3-roman-numerals 4.1.0-1 install ok installed python3-rpds-py python3-rpds-py 0.30.0-2+b1 install ok installed python3-scipy python3-scipy 1.17.1-5+b1 install ok installed python3-smart-open python3-smart-open 7.5.1-2 install ok installed python3-smmap python3-smmap 6.0.0-2 install ok installed python3-snowballstemmer python3-snowballstemmer 3.1.1-1 install ok installed python3-spectra python3-spectra 0.1.0-2 install ok installed python3-sphinx python3-sphinx 9.1.0-9 install ok installed python3-stopit python3-stopit 1.1.2-4 install ok installed python3-sympy python3-sympy 1.14.0-6 install ok installed python3-tabulate python3-tabulate 0.10.0-1 install ok installed python3-tenacity python3-tenacity 9.1.4-2 install ok installed python3-throttler python3-throttler 1.2.3-1 install ok installed python3-tk python3-tk 3.14.7-3 install ok installed python3-toposort python3-toposort 1.10-2 install ok installed python3-traitlets python3-traitlets 5.16.1-1 install ok installed python3-uc-micro python3-uc-micro 2.0.0-1 install ok installed python3-ufolib2 python3-ufolib2 0.18.1+dfsg1-2 install ok installed python3-uharfbuzz python3-uharfbuzz 0.53.3-1+b1 install ok installed python3-urllib3 python3-urllib3 2.8.0-2 install ok installed python3-wrapt python3-wrapt 2.3.0-1 install ok installed python3-xopen python3-xopen 1.7.0-4 install ok installed python3-yaml python3-yaml 6.0.3-1+b1 install ok installed python3-yte python3-yte 1.5.4-1 install ok installed python3-zopfli python3-zopfli 0.4.3-2 install ok installed python3.14 python3.14 3.14.8-1 install ok installed python3.14-minimal python3.14-minimal 3.14.8-1 install ok installed python3.14-tk python3.14-tk 3.14.8-1 install ok installed r-base-core r-base-core 4.6.1-9 install ok installed r-bioc-biobase r-bioc-biobase 2.72.0-1 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.58.1-2 install ok installed r-bioc-biocio r-bioc-biocio 1.22.0+dfsg-1 install ok installed r-bioc-biocparallel r-bioc-biocparallel 1.46.0-1 install ok installed r-bioc-biostrings r-bioc-biostrings 2.80.2+dfsg-1 install ok installed r-bioc-cigarillo r-bioc-cigarillo 1.2.1+dfsg-1 install ok installed r-bioc-delayedarray r-bioc-delayedarray 0.38.2+dfsg-1 install ok installed r-bioc-deseq2 r-bioc-deseq2 1.52.0+dfsg-1 install ok installed r-bioc-genomeinfodb r-bioc-genomeinfodb 1.48.0+dfsg-1 install ok installed r-bioc-genomicalignments r-bioc-genomicalignments 1.48.0+dfsg-1 install ok installed r-bioc-genomicranges r-bioc-genomicranges 1.64.0+dfsg-1 install ok installed r-bioc-iranges r-bioc-iranges 2.46.0-1 install ok installed r-bioc-matrixgenerics r-bioc-matrixgenerics 1.24.0-1 install ok installed r-bioc-rhtslib r-bioc-rhtslib 3.8.0+dfsg-1 install ok installed r-bioc-rsamtools r-bioc-rsamtools 2.28.0+dfsg-1+b1 install ok installed r-bioc-rtracklayer r-bioc-rtracklayer 1.72.0+ds-1+b1 install ok installed r-bioc-s4arrays r-bioc-s4arrays 1.12.1+dfsg-1 install ok installed r-bioc-s4vectors r-bioc-s4vectors 0.50.3+dfsg-1 install ok installed r-bioc-seqinfo r-bioc-seqinfo 1.2.0+dfsg-1 install ok installed r-bioc-sparsearray r-bioc-sparsearray 1.12.3+dfsg-1 install ok installed r-bioc-summarizedexperiment r-bioc-summarizedexperiment 1.42.0+dfsg-1 install ok installed r-bioc-tximport r-bioc-tximport 1.40.0+dfsg-1 install ok installed r-bioc-ucsc.utils r-bioc-ucsc.utils 1.8.0+dfsg-1 install ok installed r-bioc-xvector r-bioc-xvector 0.52.0-1 install ok installed r-cran-abind r-cran-abind 1.4-8-1 install ok installed r-cran-askpass r-cran-askpass 1.2.1-3 install ok installed r-cran-backports r-cran-backports 1.5.1-2 install ok installed r-cran-base64enc r-cran-base64enc 0.1-6-2 install ok installed r-cran-bh r-cran-bh 1.90.0-1 install ok installed r-cran-bitops r-cran-bitops 1.1-0-1 install ok installed r-cran-boot r-cran-boot 1.3-32-1 install ok installed r-cran-broom r-cran-broom 1.0.13+dfsg-2 install ok installed r-cran-bslib r-cran-bslib 0.10.0+dfsg-1 install ok installed r-cran-cachem r-cran-cachem 1.1.0-3 install ok installed r-cran-car r-cran-car 3.1-5-1 install ok installed r-cran-cardata r-cran-cardata 3.0.6-1 install ok installed r-cran-caret r-cran-caret 7.0-1+dfsg-2 install ok installed r-cran-class r-cran-class 7.3-24-1 install ok installed r-cran-cli r-cran-cli 3.6.6-1 install ok installed r-cran-clock r-cran-clock 0.7.4-2 install ok installed r-cran-codetools r-cran-codetools 0.2-20-1 install ok installed r-cran-colorspace r-cran-colorspace 2.1-4+dfsg-1 install ok installed r-cran-colourpicker r-cran-colourpicker 1.3.0+dfsg-2 install ok installed r-cran-commonmark r-cran-commonmark 2.0.0-3 install ok installed r-cran-conquer r-cran-conquer 1.3.3-1 install ok installed r-cran-corrplot r-cran-corrplot 0.95-2 install ok installed r-cran-cowplot r-cran-cowplot 1.2.0+dfsg-1 install ok installed r-cran-cpp11 r-cran-cpp11 0.5.5-1 install ok installed r-cran-crayon r-cran-crayon 1.5.3-2 install ok installed r-cran-crosstalk r-cran-crosstalk 1.2.2+dfsg-1 install ok installed r-cran-curl r-cran-curl 8.0.0+dfsg-1 install ok installed r-cran-data.table r-cran-data.table 1.18.6.1+dfsg-1 install ok installed r-cran-deriv r-cran-deriv 4.3.5-1 install ok installed r-cran-diagram r-cran-diagram 1.6.5-3 install ok installed r-cran-digest r-cran-digest 0.6.39-1 install ok installed r-cran-doby r-cran-doby 4.7.2-2 install ok installed r-cran-dplyr r-cran-dplyr 1.2.1-2 install ok installed r-cran-dt r-cran-dt 0.34.0+dfsg-1 install ok installed r-cran-e1071 r-cran-e1071 1.7-17-1 install ok installed r-cran-evaluate r-cran-evaluate 1.0.5-3 install ok installed r-cran-farver r-cran-farver 2.1.2-3 install ok installed r-cran-fastmap r-cran-fastmap 1.2.0-3 install ok installed r-cran-fontawesome r-cran-fontawesome 0.5.3-2 install ok installed r-cran-foreach r-cran-foreach 1.5.2-1 install ok installed r-cran-forecast r-cran-forecast 9.0.2-2 install ok installed r-cran-formatr r-cran-formatr 1.14-3 install ok installed r-cran-formula r-cran-formula 1.2-6-1 install ok installed r-cran-fracdiff r-cran-fracdiff 1.5-4-1 install ok installed r-cran-fs r-cran-fs 2.1.0+dfsg-1 install ok installed r-cran-futile.logger r-cran-futile.logger 1.4.9-2 install ok installed r-cran-futile.options r-cran-futile.options 1.0.1-4 install ok installed r-cran-future r-cran-future 1.75.0+dfsg-1 install ok installed r-cran-future.apply r-cran-future.apply 1.20.2+dfsg-1 install ok installed r-cran-generics r-cran-generics 0.1.4-1 install ok installed r-cran-ggplot2 r-cran-ggplot2 4.0.3+dfsg-1 install ok installed r-cran-ggpubr r-cran-ggpubr 1.0.0-1 install ok installed r-cran-ggrepel r-cran-ggrepel 0.9.8-1 install ok installed r-cran-ggsci r-cran-ggsci 5.2.0-1 install ok installed r-cran-ggsignif r-cran-ggsignif 0.6.4-2 install ok installed r-cran-globals r-cran-globals 0.19.1-2 install ok installed r-cran-glue r-cran-glue 1.8.1-2 install ok installed r-cran-gower r-cran-gower 1.0.2-2 install ok installed r-cran-gprofiler2 r-cran-gprofiler2 0.2.4+dfsg-1 install ok installed r-cran-gridextra r-cran-gridextra 2.3.1-1 install ok installed r-cran-gtable r-cran-gtable 0.3.6+dfsg-2 install ok installed r-cran-hardhat r-cran-hardhat 1.4.3+dfsg-1 install ok installed r-cran-highr r-cran-highr 0.12+dfsg-1 install ok installed r-cran-htmltools r-cran-htmltools 0.5.9-2 install ok installed r-cran-htmlwidgets r-cran-htmlwidgets 1.6.4+dfsg-2 install ok installed r-cran-httpuv r-cran-httpuv 1.6.17+dfsg-1 install ok installed r-cran-httr r-cran-httr 1.4.9+dfsg-1 install ok installed r-cran-ipred r-cran-ipred 0.9-16-1 install ok installed r-cran-isoband r-cran-isoband 0.3.0-1 install ok installed r-cran-iterators r-cran-iterators 1.0.14-1 install ok installed r-cran-jquerylib r-cran-jquerylib 0.1.4+dfsg-6 install ok installed r-cran-jsonlite r-cran-jsonlite 2.0.0+dfsg-2 install ok installed r-cran-kernsmooth r-cran-kernsmooth 2.23-27-1 install ok installed r-cran-knitr r-cran-knitr 1.51+dfsg-2 install ok installed r-cran-labeling r-cran-labeling 0.4.3-2 install ok installed r-cran-lambda.r r-cran-lambda.r 1.2.4-3 install ok installed r-cran-later r-cran-later 1.4.8+dfsg-3 install ok installed r-cran-lattice r-cran-lattice 0.23-1-1 install ok installed r-cran-lava r-cran-lava 1.9.3+dfsg-1 install ok installed r-cran-lazyeval r-cran-lazyeval 0.2.3-1 install ok installed r-cran-lifecycle r-cran-lifecycle 1.0.5+dfsg-1 install ok installed r-cran-listenv r-cran-listenv 1.1.0+dfsg-1 install ok installed r-cran-littler r-cran-littler 0.3.23-1 install ok installed r-cran-lme4 r-cran-lme4 2.0-6-1 install ok installed r-cran-lmtest r-cran-lmtest 0.9.40-1 install ok installed r-cran-locfit r-cran-locfit 1.5-9.12-2 install ok installed r-cran-lubridate r-cran-lubridate 1.9.5+dfsg-2 install ok installed r-cran-magrittr r-cran-magrittr 2.0.5-1 install ok installed r-cran-mass r-cran-mass 7.3-66-1 install ok installed r-cran-matrix r-cran-matrix 1.7-6-1 install ok installed r-cran-matrixmodels r-cran-matrixmodels 0.5-4-2 install ok installed r-cran-matrixstats r-cran-matrixstats 1.5.0-3 install ok installed r-cran-memoise r-cran-memoise 2.0.1-2 install ok installed r-cran-mgcv r-cran-mgcv 1.9-4-1 install ok installed r-cran-microbenchmark r-cran-microbenchmark 1.5.0-1 install ok installed r-cran-mime r-cran-mime 0.13-2 install ok installed r-cran-miniui r-cran-miniui 0.1.2-1 install ok installed r-cran-minqa r-cran-minqa 1.2.8-1 install ok installed r-cran-modelmetrics r-cran-modelmetrics 1.2.2.2-2 install ok installed r-cran-modelr r-cran-modelr 0.1.11-3 install ok installed r-cran-nlme r-cran-nlme 3.1.171-1 install ok installed r-cran-nloptr r-cran-nloptr 2.2.1-2+b1 install ok installed r-cran-nnet r-cran-nnet 7.3-21-1 install ok installed r-cran-numderiv r-cran-numderiv 2016.8-1.1-3 install ok installed r-cran-openssl r-cran-openssl 2.4.2+dfsg-1 install ok installed r-cran-otel r-cran-otel 0.2.0-1 install ok installed r-cran-parallelly r-cran-parallelly 1.47.0-1 install ok installed r-cran-pbkrtest r-cran-pbkrtest 0.5.5-2 install ok installed r-cran-pheatmap r-cran-pheatmap 1.0.13-1 install ok installed r-cran-pillar r-cran-pillar 1.11.1+dfsg-1 install ok installed r-cran-pkgconfig r-cran-pkgconfig 2.0.3-3 install ok installed r-cran-pkgkitten r-cran-pkgkitten 0.2.4-1 install ok installed r-cran-plotly r-cran-plotly 4.12.1+dfsg-1 install ok installed r-cran-plyr r-cran-plyr 1.8.9-2 install ok installed r-cran-polynom r-cran-polynom 1.4-1+dfsg-2 install ok installed r-cran-proc r-cran-proc 1.19.1-1 install ok installed r-cran-prodlim r-cran-prodlim 2026.03.11-1 install ok installed r-cran-progressr r-cran-progressr 1.0.0-1 install ok installed r-cran-promises r-cran-promises 1.5.0+dfsg-3 install ok installed r-cran-proxy r-cran-proxy 0.4-29-1 install ok installed r-cran-purrr r-cran-purrr 1.2.2-1 install ok installed r-cran-quantreg r-cran-quantreg 6.1-1 install ok installed r-cran-r6 r-cran-r6 2.6.1-2 install ok installed r-cran-rappdirs r-cran-rappdirs 0.3.4-2 install ok installed r-cran-rbibutils r-cran-rbibutils 2.4.1-3 install ok installed r-cran-rcolorbrewer r-cran-rcolorbrewer 1.1-3-2 install ok installed r-cran-rcpp r-cran-rcpp 1.1.2-1 install ok installed r-cran-rcpparmadillo r-cran-rcpparmadillo 15.6.2-1-1 install ok installed r-cran-rcppeigen r-cran-rcppeigen 0.3.4.0.2-1 install ok installed r-cran-rcurl r-cran-rcurl 1.98-1.20+dfsg-1 install ok installed r-cran-rdpack r-cran-rdpack 2.6.6-1 install ok installed r-cran-recipes r-cran-recipes 1.3.3+dfsg-2 install ok installed r-cran-reformulas r-cran-reformulas 0.4.4-1 install ok installed r-cran-reshape2 r-cran-reshape2 1.4.5-1 install ok installed r-cran-restfulr r-cran-restfulr 0.0.17-1 install ok installed r-cran-rjson r-cran-rjson 0.2.23-1+b1 install ok installed r-cran-rlang r-cran-rlang 1.3.0-1 install ok installed r-cran-rmarkdown r-cran-rmarkdown 2.31+dfsg-1 install ok installed r-cran-rpart r-cran-rpart 4.1.27-1 install ok installed r-cran-rstatix r-cran-rstatix 1.1.0-1 install ok installed r-cran-s7 r-cran-s7 0.2.2-1 install ok installed r-cran-sass r-cran-sass 0.4.10+dfsg-3 install ok installed r-cran-scales r-cran-scales 1.4.0-1 install ok installed r-cran-shape r-cran-shape 1.4.6.1-2 install ok installed r-cran-shiny r-cran-shiny 1.13.0+dfsg-1 install ok installed r-cran-shinyjs r-cran-shinyjs 2.1.1-1 install ok installed r-cran-snow r-cran-snow 1:0.4.4-2 install ok installed r-cran-sourcetools r-cran-sourcetools 0.1.7-2-2 install ok installed r-cran-sparsem r-cran-sparsem 1.84-2-1+b1 install ok installed r-cran-sparsevctrs r-cran-sparsevctrs 0.3.6-2 install ok installed r-cran-squarem r-cran-squarem 2026.1-1 install ok installed r-cran-statmod r-cran-statmod 1.5.2-1 install ok installed r-cran-stringi r-cran-stringi 1.8.9-1 install ok installed r-cran-stringr r-cran-stringr 1.6.0-1 install ok installed r-cran-survival r-cran-survival 3.8-12-1 install ok installed r-cran-sys r-cran-sys 3.4.3-3 install ok installed r-cran-tibble r-cran-tibble 3.3.1+dfsg-2 install ok installed r-cran-tidyr r-cran-tidyr 1.3.2-3 install ok installed r-cran-tidyselect r-cran-tidyselect 1.2.1+dfsg-3 install ok installed r-cran-timechange r-cran-timechange 0.4.0-1 install ok installed r-cran-timedate r-cran-timedate 4052.112-2 install ok installed r-cran-tinytex r-cran-tinytex 0.61-1 install ok installed r-cran-tzdb r-cran-tzdb 0.5.0-1 install ok installed r-cran-urca r-cran-urca 1.3-4-1 install ok installed r-cran-utf8 r-cran-utf8 1.2.6-2 install ok installed r-cran-vctrs r-cran-vctrs 0.7.3-2 install ok installed r-cran-viridislite r-cran-viridislite 0.4.3-1 install ok installed r-cran-withr r-cran-withr 3.0.3+dfsg-1 install ok installed r-cran-xfun r-cran-xfun 0.61+dfsg-1 install ok installed r-cran-xml r-cran-xml 3.99-0.25-1 install ok installed r-cran-xtable r-cran-xtable 1:1.8-8-1 install ok installed r-cran-yaml r-cran-yaml 2.3.12-2 install ok installed r-cran-zoo r-cran-zoo 1.9-1-1 install ok installed r-pkg-team-core-architecture r-pkg-team-core-architecture 20260707 install ok installed readline-common readline-common 8.3-4 install ok installed salmon salmon 1.10.3+ds1-3+b2 install ok installed samtools samtools 1.24-2 install ok installed sed sed 4.9-3 install ok installed sensible-utils sensible-utils 0.0.26 install ok installed sgml-base sgml-base 1.31+nmu1 install ok installed shared-mime-info shared-mime-info 2.4-5+b3 install ok installed snakemake snakemake 7.32.4-12 install ok installed sphinx-common sphinx-common 9.1.0-9 install ok installed sqv sqv 1.5.0-1 install ok installed systemd systemd 262.1-1 install ok installed systemd-sysv systemd-sysv 262.1-1 install ok installed sysvinit-utils sysvinit-utils 3.18-1 install ok installed tar tar 1.35+dfsg-6 install ok installed trim-galore trim-galore 0.6.10-1 install ok installed tzdata tzdata 2026e-1 install ok installed ucf ucf 3.0056 install ok installed unicode-data unicode-data 17.0.0-2 install ok installed unzip unzip 6.0-31 install ok installed user-session-migration user-session-migration 0.5.2 install ok installed util-linux util-linux 2.42.4-1 install ok installed x11-common x11-common 1:7.7+26 install ok installed xdg-utils xdg-utils 1.2.1-2 install ok installed xkb-data xkb-data 2.48-1 install ok installed xml-core xml-core 0.21 install ok installed xz-utils xz-utils 5.8.4-1 install ok installed zip zip 3.0-16 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.2-3 6m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 6m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'remove', '--allow-remove-essential', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bubblewrap', 'build-essential', 'bzip2', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3.1:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-16', 'cpp-16-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'cutadapt', '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', 'docutils-common', 'dpkg-dev', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-font-awesome-legacy', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++-', 'g++-16', 'g++-16-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-16', 'gcc-16-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'git', 'git-man', 'glycin-loaders', 'glycin-thumbnailers', 'gsettings-desktop-schemas', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'junit4', 'libabsl20260526:amd64', 'libaom3:amd64', 'libapache-pom-java', 'libapparmor1:amd64', 'libasan8: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', 'libavif16:amd64', 'libbigwig0t64:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.92.0:amd64', 'libboost-iostreams1.92.0:amd64', 'libboost-program-options1.92.0:amd64', 'libboost-regex1.92-dev:amd64', 'libboost-regex1.92.0:amd64', 'libboost1.92-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcc1-0:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libezmorph-java', 'libffi8:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-2:amd64', 'libgbm1:amd64', 'libgcc-16-dev:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libglycin-2-0:amd64', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libhamcrest-java', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libheif-plugin-dav1d:amd64', 'libheif-plugin-libde265:amd64', 'libheif1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwasan0:amd64', 'libhwloc15:amd64', 'libhwy1t64:amd64', 'libice6:amd64', 'libicu78:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libisal2:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjaxen-java', 'libjbig0:amd64', 'libjbzip2-java', 'libjemalloc2:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-datatables-extensions', 'libjs-jquery-metadata', 'libjs-jquery-selectize.js', 'libjs-jquery-tablesorter', 'libjs-jquery-ui', 'libjs-json', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-sphinxdoc', 'libjs-twitter-bootstrap-datepicker', 'libjson-java', 'libjson-perl', 'libjxl0.11:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libllvm22:amd64', 'liblog4j1.2-java', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnlopt1:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper2:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.42:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.14:amd64', 'libpython3.14-minimal:amd64', 'libpython3.14-stdlib:amd64', 'libqhull-r8.0:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'libreadline8t64:amd64', 'librhino-java', 'librsvg2-2:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsframe3:amd64', 'libsharpyuv0:amd64', 'libslf4j-java', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libstaden-read14t64:amd64', 'libstdc++-16-dev:amd64', 'libsvtav1enc4:amd64', 'libsystemd-shared:amd64', 'libtasn1-6:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6: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', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxom-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxres1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libzopfli1', 'linux-libc-dev', 'make', 'media-types', 'megadepth', 'mesa-libgallium:amd64', 'multiqc', 'ncbi-vdb-data', 'netbase', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-25-jre:amd64', 'openjdk-25-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'patch', 'pci.ids', 'perl', 'perl-modules-5.42', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-alabaster', 'python3-attr', 'python3-babel', 'python3-brotli', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-coloredlogs', 'python3-colormath', 'python3-configargparse', 'python3-connection-pool', 'python3-contourpy', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-defusedxml', 'python3-dnaio', 'python3-docutils', 'python3-dpath', 'python3-fastjsonschema', 'python3-fonttools', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-humanize', 'python3-idna', 'python3-imagesize', 'python3-jinja2', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-jupyter-core', 'python3-kiwisolver', 'python3-linkify-it', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markdown-it', 'python3-markupsafe', 'python3-matplotlib', 'python3-mdurl', 'python3-minimal', 'python3-mpmath', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-numpydoc', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-plac', 'python3-platformdirs', 'python3-plotly', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pyaml-env', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pysam', 'python3-pytz', 'python3-referencing', 'python3-requests', 'python3-retry', 'python3-rich', 'python3-rich-click', 'python3-roman-numerals', 'python3-rpds-py', 'python3-scipy', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-throttler', 'python3-tk', 'python3-toposort', 'python3-traitlets', 'python3-uc-micro', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yte', 'python3-zopfli', 'python3.14', 'python3.14-minimal', 'python3.14-tk', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-cigarillo', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-genomeinfodb', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-seqinfo', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-boot', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-class', 'r-cran-cli', 'r-cran-clock', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-colourpicker', 'r-cran-commonmark', 'r-cran-conquer', 'r-cran-corrplot', 'r-cran-cowplot', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-crosstalk', 'r-cran-curl', 'r-cran-data.table', 'r-cran-deriv', 'r-cran-diagram', 'r-cran-digest', 'r-cran-doby', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-evaluate', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-foreach', 'r-cran-forecast', 'r-cran-formatr', 'r-cran-formula', 'r-cran-fracdiff', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-future', 'r-cran-future.apply', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-ggpubr', 'r-cran-ggrepel', 'r-cran-ggsci', 'r-cran-ggsignif', 'r-cran-globals', 'r-cran-glue', 'r-cran-gower', 'r-cran-gprofiler2', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-hardhat', 'r-cran-highr', 'r-cran-htmltools', 'r-cran-htmlwidgets', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-ipred', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-kernsmooth', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lava', 'r-cran-lazyeval', 'r-cran-lifecycle', 'r-cran-listenv', 'r-cran-littler', 'r-cran-lme4', 'r-cran-lmtest', 'r-cran-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-microbenchmark', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-modelr', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-otel', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-polynom', 'r-cran-proc', 'r-cran-prodlim', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rbibutils', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-rdpack', 'r-cran-recipes', 'r-cran-reformulas', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rstatix', 'r-cran-s7', 'r-cran-sass', 'r-cran-scales', 'r-cran-shape', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sparsem', 'r-cran-sparsevctrs', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-urca', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zoo', 'r-pkg-team-core-architecture', 'readline-common', 'salmon', 'samtools', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'systemd', 'systemd-sysv', 'trim-galore', 'unicode-data', 'unzip', 'user-session-migration', 'x11-common', 'xdg-utils', 'xkb-data', 'xml-core', 'xz-utils', 'zip', 'pigx-rnaseq'] 7m7.6s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following packages will be REMOVED: adwaita-icon-theme at-spi2-common binutils binutils-common binutils-x86-64-linux-gnu bubblewrap build-essential bzip2 ca-certificates ca-certificates-java coinor-cbc coinor-libcbc3.1 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 cpp cpp-16 cpp-16-x86-64-linux-gnu cpp-x86-64-linux-gnu cutadapt 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 docutils-common dpkg-dev fastp fastqc fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-font-awesome-legacy fonts-glyphicons-halflings fonts-lyx fonts-mathjax g++ g++-16 g++-16-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-16 gcc-16-x86-64-linux-gnu gcc-x86-64-linux-gnu git git-man glycin-loaders glycin-thumbnailers gsettings-desktop-schemas gtk-update-icon-cache hicolor-icon-theme hisat2 java-common javascript-common junit4 libabsl20260526 libaom3 libapache-pom-java libapparmor1 libasan8 libasound2-data libasound2t64 libatk-bridge2.0-0t64 libatk1.0-0t64 libatomic1 libatspi2.0-0t64 libavahi-client3 libavahi-common-data libavahi-common3 libavif16 libbigwig0t64 libbinutils libblas3 libboost-dev libboost-filesystem1.92.0 libboost-iostreams1.92.0 libboost-program-options1.92.0 libboost-regex1.92-dev libboost-regex1.92.0 libboost1.92-dev libbrotli1 libc-dev-bin libc6-dev libcairo-gobject2 libcairo2 libcap2 libcc1-0 libcloudproviders0 libcolord2 libcom-err2 libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libctf-nobfd0 libctf0 libcups2t64 libcurl3t64-gnutls libcurl4-gnutls libcurl4t64 libdatrie1 libdav1d7 libdbus-1-3 libdconf1 libde265-0 libdeflate0 libdpkg-perl libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm2 libedit2 libelf1t64 libepoxy0 liberror-perl libexpat1 libezmorph-java libffi8 libfindbin-libs-perl libfontconfig1 libfreetype6 libfribidi0 libgav1-2 libgbm1 libgcc-16-dev libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgl1 libgl1-mesa-dri libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libglycin-2-0 libgnutls30t64 libgomp1 libgpg-error0 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libgtk-3-0t64 libgtk-3-common libhamcrest-java libharfbuzz-subset0 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libhts3t64 libhtscodecs2 libhtsjdk-java libhwasan0 libhwloc15 libhwy1t64 libice6 libicu78 libidn2-0 libimagequant0 libisal2 libisl23 libitm1 libjansson4 libjaxen-java libjbig0 libjbzip2-java libjemalloc2 libjpeg62-turbo libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables libjs-jquery-datatables-extensions libjs-jquery-metadata libjs-jquery-selectize.js libjs-jquery-tablesorter libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js libjs-sphinxdoc libjs-twitter-bootstrap-datepicker libjson-java libjson-perl libjxl0.11 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm22 liblog4j1.2-java liblsan0 liblua5.4-0 libmbedcrypto16 libmbedtls21 libmbedx509-7 libmpc3 libmpfr6 libncbi-ngs3 libncbi-vdb3 libncurses6 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-gnutls8 libngtcp2-crypto-ossl0 libnlopt1 libnspr4 libnss3 libnuma1 libopenjp2-7 libp11-kit0 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpciaccess0 libpcsclite1 libperl5.42 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.14 libpython3.14-minimal libpython3.14-stdlib libqhull-r8.0 libquadmath0 libraqm0 librav1e0.8 libreadline8t64 librhino-java librsvg2-2 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsframe3 libsharpyuv0 libslf4j-java libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libstaden-read14t64 libstdc++-16-dev libsvtav1enc4 libsystemd-shared libtasn1-6 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libunistring5 libuv1t64 libvulkan1 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2-16 libxom-java libxrandr2 libxrender1 libxres1 libxshmfence1 libxslt1.1 libxss1 libxt6t64 libxtst6 libxxf86vm1 libyaml-0-2 libyuv0 libz3-4 libzopfli1 linux-libc-dev make media-types megadepth mesa-libgallium multiqc ncbi-vdb-data netbase node-bootstrap-sass node-html5shiv node-normalize.css openjdk-25-jre openjdk-25-jre-headless openssl pandoc pandoc-data patch pci.ids perl perl-modules-5.42 pigx-rnaseq pigz python-babel-localedata python-matplotlib-data python3 python3-alabaster python3-attr python3-babel python3-brotli python3-certifi python3-chardet python3-charset-normalizer python3-click python3-coloredlogs python3-colormath python3-configargparse python3-connection-pool python3-contourpy python3-cutadapt python3-cycler python3-dateutil python3-datrie python3-decorator python3-deeptools python3-deeptoolsintervals python3-defusedxml python3-dnaio python3-docutils python3-dpath python3-fastjsonschema python3-fonttools python3-git python3-gitdb python3-htseq python3-humanfriendly python3-humanize python3-idna python3-imagesize python3-jinja2 python3-jsonschema python3-jsonschema-specifications python3-jupyter-core python3-kiwisolver python3-linkify-it python3-lxml python3-lz4 python3-lzstring python3-markdown python3-markdown-it python3-markupsafe python3-matplotlib python3-mdurl python3-minimal python3-mpmath python3-nbformat python3-networkx python3-numpy python3-numpy-dev python3-numpydoc python3-packaging python3-pil python3-pil.imagetk python3-plac python3-platformdirs python3-plotly python3-psutil python3-pulp python3-py2bit python3-pyaml-env python3-pybigwig python3-pygments python3-pyparsing python3-pysam python3-pytz python3-referencing python3-requests python3-retry python3-rich python3-rich-click python3-roman-numerals python3-rpds-py python3-scipy python3-smart-open python3-smmap python3-snowballstemmer python3-spectra python3-sphinx python3-stopit python3-sympy python3-tabulate python3-tenacity python3-throttler python3-tk python3-toposort python3-traitlets python3-uc-micro python3-ufolib2 python3-uharfbuzz python3-urllib3 python3-wrapt python3-xopen python3-yaml python3-yte python3-zopfli python3.14 python3.14-minimal python3.14-tk r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-cigarillo r-bioc-delayedarray r-bioc-deseq2 r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-seqinfo r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-tximport r-bioc-ucsc.utils r-bioc-xvector r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh r-cran-bitops r-cran-boot r-cran-broom r-cran-bslib r-cran-cachem r-cran-car r-cran-cardata r-cran-caret r-cran-class r-cran-cli r-cran-clock r-cran-codetools r-cran-colorspace r-cran-colourpicker r-cran-commonmark r-cran-conquer r-cran-corrplot r-cran-cowplot r-cran-cpp11 r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-data.table r-cran-deriv r-cran-diagram r-cran-digest r-cran-doby r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-evaluate r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-foreach r-cran-forecast r-cran-formatr r-cran-formula r-cran-fracdiff r-cran-fs r-cran-futile.logger r-cran-futile.options r-cran-future r-cran-future.apply r-cran-generics r-cran-ggplot2 r-cran-ggpubr r-cran-ggrepel r-cran-ggsci r-cran-ggsignif r-cran-globals r-cran-glue r-cran-gower r-cran-gprofiler2 r-cran-gridextra r-cran-gtable r-cran-hardhat r-cran-highr r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-ipred r-cran-isoband r-cran-iterators r-cran-jquerylib r-cran-jsonlite r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lava r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lme4 r-cran-lmtest r-cran-locfit r-cran-lubridate r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-microbenchmark r-cran-mime r-cran-miniui r-cran-minqa r-cran-modelmetrics r-cran-modelr r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-otel r-cran-parallelly r-cran-pbkrtest r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plotly r-cran-plyr r-cran-polynom r-cran-proc r-cran-prodlim r-cran-progressr r-cran-promises r-cran-proxy r-cran-purrr r-cran-quantreg r-cran-r6 r-cran-rappdirs r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcurl r-cran-rdpack r-cran-recipes r-cran-reformulas r-cran-reshape2 r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstatix r-cran-s7 r-cran-sass r-cran-scales r-cran-shape r-cran-shiny r-cran-shinyjs r-cran-snow r-cran-sourcetools r-cran-sparsem r-cran-sparsevctrs r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tzdb r-cran-urca r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml r-cran-zoo r-pkg-team-core-architecture readline-common salmon samtools sgml-base shared-mime-info snakemake sphinx-common systemd systemd-sysv trim-galore unicode-data unzip user-session-migration x11-common xdg-utils xkb-data xml-core xz-utils zip WARNING: The following essential packages will be removed. This should NOT be done unless you know exactly what you are doing! systemd-sysv systemd (due to systemd-sysv) 0 upgraded, 0 newly installed, 692 to remove and 0 not upgraded. After this operation, 2694 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 ... 102128 files and directories currently installed.) Removing pigx-rnaseq (0.1.1-4) ... Removing fastqc (0.12.1+dfsg-4) ... Removing default-jre (2:1.25-77) ... Removing openjdk-25-jre:amd64 (25.0.5~7ea-2) ... Removing libgtk-3-0t64:amd64 (3.24.52-3) ... Removing adwaita-icon-theme (51.0-1) ... Removing libatk-bridge2.0-0t64:amd64 (2.62.1-1) ... Removing libatk1.0-0t64:amd64 (2.62.1-1) ... Removing at-spi2-common (2.62.1-1) ... Removing r-cran-gprofiler2 (0.2.4+dfsg-1) ... Removing r-cran-plotly (4.12.1+dfsg-1) ... Removing r-cran-colourpicker (1.3.0+dfsg-2) ... Removing r-cran-shinyjs (2.1.1-1) ... Removing r-bioc-rtracklayer (1.72.0+ds-1+b1) ... Removing r-cran-restfulr (0.0.17-1) ... Removing r-cran-rcurl (1.98-1.20+dfsg-1) ... Removing gtk-update-icon-cache (4.24.1+ds-1) ... Removing libhtsjdk-java (5.0.0+dfsg-2) ... Removing libjson-java (3.2.0+dfsg-2) ... Removing junit4 (4.13.2-6) ... Removing default-jre-headless (2:1.25-77) ... Removing openjdk-25-jre-headless:amd64 (25.0.5~7ea-2) ... Removing ca-certificates-java (20260311) ... Removing snakemake (7.32.4-12) ... Removing python3-pulp (2.7.0+dfsg-5) ... Removing coinor-cbc (2.10.13+ds-1) ... Removing coinor-libcbc3.1:amd64 (2.10.13+ds-1) ... Removing coinor-libcgl1:amd64 (0.60.10+ds-1) ... Removing coinor-libclp1:amd64 (1.17.10+ds-1+b2) ... Removing coinor-libosi1v5:amd64 (0.108.11+ds-1+b2) ... Removing coinor-libcoinutils3v5:amd64 (2.11.12+ds-1+b2) ... Removing trim-galore (0.6.10-1) ... Removing cutadapt (4.7-2) ... Removing libgtk-3-common (3.24.52-3) ... Removing gsettings-desktop-schemas (51.0-2) ... Removing dconf-gsettings-backend:amd64 (51.0-2) ... Removing dconf-service (51.0-2) ... Removing dbus-user-session (1.16.2-8) ... Removing libpam-systemd:amd64 (262.1-1) ... Removing dbus (1.16.2-8) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing dbus-daemon (1.16.2-8) ... Removing dbus-bin (1.16.2-8) ... Removing dbus-session-bus-common (1.16.2-8) ... Removing dbus-system-bus-common (1.16.2-8) ... Removing python3-deeptools (3.5.6+dfsg-1) ... 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Removing r-cran-rpart (4.1.27-1) ... Removing r-cran-pbkrtest (0.5.5-2) ... Removing r-cran-doby (4.7.2-2) ... Removing r-cran-forecast (9.0.2-2) ... Removing r-cran-urca (1.3-4-1) ... Removing multiqc (1.21+dfsg-4) ... Removing python3-matplotlib (3.10.9+dfsg1-2) ... Removing python3-pil.imagetk:amd64 (12.3.0-1+b1) ... Removing python3-pil:amd64 (12.3.0-1+b1) ... Removing python3-tk (3.14.7-3) ... Removing python3.14-tk (3.14.8-1) ... Removing python-matplotlib-data (3.10.9+dfsg1-2) ... Removing r-cran-dt (0.34.0+dfsg-1) ... Removing r-cran-crosstalk (1.2.2+dfsg-1) ... Removing fonts-lyx (2.5.3-2) ... Removing python3-git (3.2.1-1) ... Removing hicolor-icon-theme (0.18-2) ... Removing hisat2 (2.2.1-5+b4) ... Removing java-common (0.77) ... Removing libavif16:amd64 (1.4.2-1) ... Removing libgav1-2:amd64 (0.20.0-2+b2) ... Removing libabsl20260526:amd64 (20260526.0-2+b1) ... Removing libaom3:amd64 (3.14.1-1) ... Removing libslf4j-java (1.7.36-1) ... 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Removing libsnappy1v5:amd64 (1.3.1-3) ... Removing libsvtav1enc4:amd64 (4.2.0+dfsg-1) ... dpkg: warning: overriding problem because --force enabled: dpkg: warning: this is a protected package; it should not be removed Removing systemd-sysv (262.1-1) ... Removing systemd (262.1-1) ... Removing libsystemd-shared:amd64 (262.1-1) ... Removing libtbbmalloc2:amd64 (2023.1.0-3) ... Removing libvulkan1:amd64 (1.4.363.0-1) ... Removing libwayland-egl1:amd64 (1.26.0-1) ... Removing libxxf86vm1:amd64 (1:1.1.4-2+b1) ... Removing libxtst6:amd64 (2:1.2.5-1+b2) ... Removing libx11-xcb1:amd64 (2:1.8.13-1) ... Removing libxcb-xfixes0:amd64 (1.17.0-2+b2) ... Removing libxcb-sync1:amd64 (1.17.0-2+b2) ... Removing libxcb-dri3-0:amd64 (1.17.0-2+b2) ... Removing libxcb-glx0:amd64 (1.17.0-2+b2) ... Removing libxcb-present0:amd64 (1.17.0-2+b2) ... Removing libxcb-randr0:amd64 (1.17.0-2+b2) ... Removing libxcomposite1:amd64 (1:0.4.6-1+b2) ... Removing libxcursor1:amd64 (1:1.2.3-1+b2) ... Removing libxdamage1:amd64 (1:1.1.7-1+b1) ... Removing libxerces2-java (2.12.2-1) ... Removing libxfixes3:amd64 (1:6.0.0-2+b5) ... Removing libxi6:amd64 (2:1.8.3-1) ... Removing libxinerama1:amd64 (2:1.1.4-3+b5) ... Removing libxkbcommon0:amd64 (1.13.1-1) ... Removing libxml-commons-external-java (1.4.01-6) ... Removing libxml-commons-resolver1.1-java (1.2-11) ... Removing r-cran-xml (3.99-0.25-1) ... Removing libxrandr2:amd64 (2:1.5.4-1+b4) ... Removing libxres1:amd64 (2:1.2.1-2) ... Removing libxshmfence1:amd64 (1.3.3-1+b2) ... Removing python3-pyaml-env (1.2.1-2) ... Removing python3-yaml (6.0.3-1+b1) ... Removing libz3-4:amd64 (4.13.3-1.1) ... Removing python3-cutadapt (4.7-2+b5) ... Removing python3-dnaio (1.2.4-1+b2) ... Removing python3-xopen (1.7.0-4) ... Removing pigz (2.8-2) ... Removing ncbi-vdb-data (3.4.1+dfsg-1) ... Removing pci.ids (0.0~2026.09.23-1) ... Removing python3-babel (2.18.0+git2026-08-12-3) ... Removing python-babel-localedata (2.18.0+git2026-08-12-3) ... 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Removing r-cran-sparsevctrs (0.3.6-2) ... Removing r-cran-clock (0.7.4-2) ... Removing r-cran-lava (1.9.3+dfsg-1) ... Removing r-cran-future.apply (1.20.2+dfsg-1) ... Removing r-cran-future (1.75.0+dfsg-1) ... Removing r-cran-globals (0.19.1-2) ... Removing r-cran-foreach (1.5.2-1) ... Removing r-cran-codetools (0.2-20-1) ... Removing r-cran-colorspace (2.1-4+dfsg-1) ... Removing r-cran-corrplot (0.95-2) ... Removing r-cran-cowplot (1.2.0+dfsg-1) ... Removing r-cran-tzdb (0.5.0-1) ... Removing r-cran-lubridate (1.9.5+dfsg-2) ... Removing r-cran-timechange (0.4.0-1) ... Removing r-cran-crayon (1.5.3-2) ... Removing r-cran-modelmetrics (1.2.2.2-2) ... Removing r-cran-deriv (4.3.5-1) ... Removing r-cran-diagram (1.6.5-3) ... Removing r-cran-progressr (1.0.0-1) ... Removing r-cran-pheatmap (1.0.13-1) ... Removing r-cran-ggsci (5.2.0-1) ... Removing r-cran-futile.logger (1.4.9-2) ... Removing r-cran-lambda.r (1.2.4-3) ... Removing r-cran-formatr (1.14-3) ... Removing r-cran-formula (1.2-6-1) ... Removing r-cran-futile.options (1.0.1-4) ... Removing r-cran-ggsignif (0.6.4-2) ... Removing r-cran-ggrepel (0.9.8-1) ... Removing r-cran-ggplot2 (4.0.3+dfsg-1) ... Removing r-cran-pillar (1.11.1+dfsg-1) ... Removing r-cran-gridextra (2.3.1-1) ... Removing r-cran-gtable (0.3.6+dfsg-2) ... Removing r-cran-isoband (0.3.0-1) ... Removing r-cran-iterators (1.0.14-1) ... Removing r-cran-kernsmooth (2.23-27-1) ... Removing r-cran-lmtest (0.9.40-1) ... Removing r-cran-zoo (1.9-1-1) ... Removing r-cran-nlme (3.1.171-1) ... Removing r-cran-lazyeval (0.2.3-1) ... Removing r-cran-purrr (1.2.2-1) ... Removing r-cran-listenv (1.1.0+dfsg-1) ... Removing r-cran-proc (1.19.1-1) ... Removing r-cran-locfit (1.5-9.12-2) ... Removing r-cran-mass (7.3-66-1) ... Removing r-cran-matrixmodels (0.5-4-2) ... Removing r-cran-matrixstats (1.5.0-3) ... Removing r-cran-microbenchmark (1.5.0-1) ... Removing r-cran-minqa (1.2.8-1) ... Removing r-cran-nnet (7.3-21-1) ... Removing r-cran-numderiv (2016.8-1.1-3) ... Removing r-cran-parallelly (1.47.0-1) ... Removing r-cran-pkgconfig (2.0.3-3) ... Removing r-cran-plyr (1.8.9-2) ... Removing r-cran-polynom (1.4-1+dfsg-2) ... Removing r-cran-proxy (0.4-29-1) ... Removing r-cran-reformulas (0.4.4-1) ... Removing r-cran-rdpack (2.6.6-1) ... Removing r-cran-rbibutils (2.4.1-3) ... Removing r-cran-rjson (0.2.23-1+b1) ... Removing r-cran-s7 (0.2.2-1) ... Removing r-cran-shape (1.4.6.1-2) ... Removing r-cran-sparsem (1.84-2-1+b1) ... Removing r-cran-squarem (2026.1-1) ... Removing r-cran-statmod (1.5.2-1) ... Removing r-cran-sys (3.4.3-3) ... Removing r-cran-timedate (4052.112-2) ... Removing r-cran-utf8 (1.2.6-2) ... Removing xml-core (0.21) ... Removing sgml-base (1.31+nmu1) ... Removing xkb-data (2.48-1) ... Removing r-cran-htmlwidgets (1.6.4+dfsg-2) ... Removing r-cran-rmarkdown (2.31+dfsg-1) ... Removing r-cran-shiny (1.13.0+dfsg-1) ... Removing r-cran-bslib (0.10.0+dfsg-1) ... Removing r-cran-sass (0.4.10+dfsg-3) ... Removing r-cran-survival (3.8-12-1) ... Removing r-cran-matrix (1.7-6-1) ... Removing fonts-font-awesome (7.3.0+dfsg-1) ... Removing fonts-font-awesome-legacy (6-4) ... Removing r-cran-knitr (1.51+dfsg-2) ... Removing libjs-mathjax (2.7.9+dfsg-1) ... Removing fonts-mathjax (2.7.9+dfsg-1) ... Removing r-cran-tinytex (0.61-1) ... Removing r-cran-highr (0.12+dfsg-1) ... Removing r-cran-xfun (0.61+dfsg-1) ... Removing git (1:2.55.0-1) ... Removing git-man (1:2.55.0-1) ... Removing libjs-bootstrap4 (4.6.2+dfsg-3) ... Removing libjs-popper.js (1.16.1+ds-7) ... Removing javascript-common (12+nmu1) ... Removing libcommons-logging-java (1.3.0-2) ... Removing libcommons-parent-java (56-1) ... Removing libapache-pom-java (33-2) ... Removing libcurl4-gnutls:amd64 (8.23.0-1) ... Removing liberror-perl (0.17030-1) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.24.0-1) ... Removing libgnutls30t64:amd64 (3.8.13-1) ... Removing r-cran-data.table (1.18.6.1+dfsg-1) ... Removing libjs-d3 (3.5.17-4) ... Removing libjs-es5-shim (4.6.7-2) ... Removing libjs-highlight.js (10.7.3+dfsg-6) ... Removing r-cran-jquerylib (0.1.4+dfsg-6) ... Removing libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... Removing libjs-jquery-datatables (1.11.5+dfsg-2) ... Removing libjs-jquery-ui (1.14.2+dfsg-1) ... Removing libjs-json (0~20221030+~1.0.8-1) ... Removing libjs-microplugin.js (0.0.3+dfsg-2) ... Removing libjs-modernizr (3.13.0-0.1) ... Removing libjs-prettify (2015.12.04+dfsg-3) ... Removing libjs-sifter.js (0.6.0+dfsg-3) ... Removing libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... Removing pandoc (3.11-1) ... Removing liblua5.4-0:amd64 (5.4.9-1) ... Removing libnuma1:amd64 (2.0.19-1+b2) ... Removing libp11-kit0:amd64 (0.26.5-1) ... Removing libtasn1-6:amd64 (4.21.0-2+b1) ... Removing r-cran-httpuv (1.6.17+dfsg-1) ... Removing r-cran-fs (2.1.0+dfsg-1) ... Removing libuv1t64:amd64 (1.53.0-1) ... Removing libyaml-0-2:amd64 (0.2.5-2+b1) ... Removing node-bootstrap-sass (3.4.3-2) ... Removing node-html5shiv (3.7.3+dfsg-5) ... Removing node-normalize.css (8.0.1-5.1) ... Removing pandoc-data (3.11-1) ... Removing r-bioc-biocgenerics (0.58.1-2) ... Removing r-cran-fontawesome (0.5.3-2) ... Removing r-cran-htmltools (0.5.9-2) ... Removing r-cran-base64enc (0.1-6-2) ... Removing r-cran-memoise (2.0.1-2) ... Removing r-cran-cachem (1.1.0-3) ... Removing r-cran-vctrs (0.7.3-2) ... Removing r-cran-commonmark (2.0.0-3) ... Removing r-cran-cpp11 (0.5.5-1) ... Removing r-cran-digest (0.6.39-1) ... Removing r-cran-evaluate (1.0.5-3) ... Removing r-cran-scales (1.4.0-1) ... Removing r-cran-farver (2.1.2-3) ... Removing r-cran-promises (1.5.0+dfsg-3) ... Removing r-cran-fastmap (1.2.0-3) ... Removing r-cran-generics (0.1.4-1) ... Removing r-cran-glue (1.8.1-2) ... Removing r-cran-jsonlite (2.0.0+dfsg-2) ... Removing r-cran-labeling (0.4.3-2) ... Removing r-cran-later (1.4.8+dfsg-3) ... Removing r-cran-lattice (0.23-1-1) ... Removing r-cran-lifecycle (1.0.5+dfsg-1) ... Removing r-cran-rcpp (1.1.2-1) ... Removing r-cran-littler (0.3.23-1) ... Removing r-cran-magrittr (2.0.5-1) ... Removing r-cran-mime (0.13-2) ... Removing r-cran-otel (0.2.0-1) ... Removing r-cran-pkgkitten (0.2.4-1) ... Removing r-cran-r6 (2.6.1-2) ... Removing r-cran-rappdirs (0.3.4-2) ... Removing r-cran-rcolorbrewer (1.1-3-2) ... Removing r-cran-rlang (1.3.0-1) ... Removing r-cran-sourcetools (0.1.7-2-2) ... Removing r-cran-viridislite (0.4.3-1) ... Removing r-cran-withr (3.0.3+dfsg-1) ... Removing r-cran-xtable (1:1.8-8-1) ... Removing r-cran-yaml (2.3.12-2) ... Removing r-pkg-team-core-architecture (20260707) ... Removing build-essential (12.12) ... Removing g++ (4:16.1.0-3) ... Removing gcc (4:16.1.0-3) ... Removing dpkg-dev (1.23.11) ... Removing g++-x86-64-linux-gnu (4:16.1.0-3) ... Removing gcc-x86-64-linux-gnu (4:16.1.0-3) ... Removing bzip2 (1.0.8-6+b2) ... Removing cpp (4:16.1.0-3) ... Removing cpp-x86-64-linux-gnu (4:16.1.0-3) ... Removing libjs-bootstrap (3.4.1+dfsg-7) ... Removing fonts-glyphicons-halflings (1.009~3.4.1+dfsg-7) ... Removing g++-16 (16.2.0-3) ... Removing g++-16-x86-64-linux-gnu (16.2.0-3) ... Removing libdpkg-perl (1.23.11) ... Removing perl (5.42.3-1) ... Removing libperl5.42:amd64 (5.42.3-1) ... Removing libgdbm-compat4t64:amd64 (1.26-1+b2) ... Removing libgdbm6t64:amd64 (1.26-1+b2) ... Removing libjs-jquery (3.7.1+dfsg+~3.5.33-1) ... Removing make (4.4.1-3) ... Removing patch (2.8-2) ... Removing perl-modules-5.42 (5.42.3-1) ... Removing r-cran-cli (3.6.6-1) ... Removing xz-utils (5.8.4-1) ... Removing gcc-16 (16.2.0-3) ... Removing binutils (2.47-6) ... Removing libgprofng0:amd64 (2.47-6) ... Removing gcc-16-x86-64-linux-gnu (16.2.0-3) ... Removing binutils-x86-64-linux-gnu (2.47-6) ... Removing libctf0:amd64 (2.47-6) ... Removing libbinutils:amd64 (2.47-6) ... Removing binutils-common:amd64 (2.47-6) ... Removing cpp-16 (16.2.0-3) ... Removing cpp-16-x86-64-linux-gnu (16.2.0-3) ... Removing r-base-core (4.6.1-9) ... Removing libtk8.6:amd64 (8.6.18-1) ... Removing libxft2:amd64 (2.3.6-1+b5) ... Removing libcc1-0:amd64 (16.2.0-3) ... Removing libtirpc3t64:amd64 (1.3.7+ds-1) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libcurl4t64:amd64 (8.23.0-1) ... Removing libgssapi-krb5-2:amd64 (1.22.1-3) ... Removing libkrb5-3:amd64 (1.22.1-3) ... Removing libcom-err2:amd64 (1.47.4-1+b2) ... Removing libctf-nobfd0:amd64 (2.47-6) ... Removing libtiff6:amd64 (4.7.2-1) ... Removing libdeflate0:amd64 (1.25-1) ... Removing libxt6t64:amd64 (1:1.2.1-1.3+b2) ... Removing libsm6:amd64 (2:1.2.6-1+b2) ... Removing libice6:amd64 (2:1.1.1-1+b2) ... Removing libicu78:amd64 (78.3-2) ... Removing libpsl5t64:amd64 (0.23.3-1) ... Removing libidn2-0:amd64 (2.3.8-5) ... Removing libisl23:amd64 (0.28-1) ... Removing libjansson4:amd64 (2.15.1-1) ... Removing libjbig0:amd64 (2.1-6.1+b3) ... Removing libjpeg62-turbo:amd64 (1:3.1.3-4) ... Removing libk5crypto3:amd64 (1.22.1-3) ... Removing libkeyutils1:amd64 (1.6.3-6+b2) ... Removing libkrb5support0:amd64 (1.22.1-3) ... Removing libldap2:amd64 (2.6.14+dfsg-2) ... Removing liblerc4:amd64 (4.2.0+ds-1) ... Removing libmpc3:amd64 (1.3.1-3) ... Removing libmpfr6:amd64 (4.2.2-3) ... Removing libnghttp2-14:amd64 (1.70.0-1) ... Removing libnghttp3-9:amd64 (1.17.0-1) ... Removing libngtcp2-crypto-ossl0:amd64 (1.24.0-1) ... Removing libngtcp2-16:amd64 (1.24.0-1) ... Removing libpaper-utils (2.2.5-0.4) ... Removing libpaper2:amd64 (2.2.5-0.4) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-12) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-12) ... Removing libsframe3:amd64 (2.47-6) ... Removing libwebp7:amd64 (1.6.0-0.1) ... Removing libssh2-1t64:amd64 (1.11.1-6) ... Removing libtcl8.6:amd64 (8.6.18+dfsg-1) ... Removing libtirpc-common (1.3.7+ds-1) ... Removing libunistring5:amd64 (1.4.2-1) ... Removing libxss1:amd64 (1:1.2.3-1+b4) ... Removing unzip (6.0-31) ... Removing x11-common (1:7.7+26) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xdg-utils (1.2.1-2) ... Removing zip (3.0-16) ... Removing ca-certificates (20260816) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing openssl (3.6.5-1) ... Removing libboost1.92-dev:amd64 (1.92.0-4) ... Removing libboost-regex1.92-dev:amd64 (1.92.0-4) ... Removing libstdc++-16-dev:amd64 (16.2.0-3) ... Removing libgcc-16-dev:amd64 (16.2.0-3) ... Removing libasan8:amd64 (16.2.0-3) ... Removing python3-ufolib2 (0.18.1+dfsg1-2) ... Removing libboost-regex1.92.0:amd64 (1.92.0-4) ... Removing libc6-dev:amd64 (2.43-7) ... Removing libc-dev-bin (2.43-7) ... Removing libgomp1:amd64 (16.2.0-3) ... Removing libhwasan0:amd64 (16.2.0-3) ... Removing libitm1:amd64 (16.2.0-3) ... Removing liblsan0:amd64 (16.2.0-3) ... Removing libquadmath0:amd64 (16.2.0-3) ... Removing libtsan2:amd64 (16.2.0-3) ... Removing libubsan1:amd64 (16.2.0-3) ... Removing linux-libc-dev (7.2.11-1) ... Removing python3-attr (26.1.0-1) ... Removing glycin-loaders (2.2.3+ds-1) ... Removing librsvg2-2:amd64 (2.63.2+dfsg-1) ... Removing bubblewrap (0.13.1-1) ... Removing libpangocairo-1.0-0:amd64 (1.58.2-1) ... Removing libpangoft2-1.0-0:amd64 (1.58.2-1) ... Removing libpango-1.0-0:amd64 (1.58.2-1) ... Removing fontconfig (2.17.1-5) ... Removing python3-fonttools (4.65.0-1) ... Removing python3-scipy (1.17.1-5+b1) ... Removing libheif1:amd64 (1.23.6-2) ... Removing libheif-plugin-libde265:amd64 (1.23.6-2) ... Removing libjxl0.11:amd64 (0.11.2-5.1) ... Removing libcairo-gobject2:amd64 (1.18.4-3+b1) ... Removing libcairo2:amd64 (1.18.4-3+b1) ... Removing libcap2:amd64 (1:2.78-1+b1) ... Removing libthai0:amd64 (0.1.30-3) ... Removing libdatrie1:amd64 (0.2.14-2) ... Removing libde265-0:amd64 (1.1.3-1+b1) ... Removing python3-uharfbuzz (0.53.3-1+b1) ... Removing libharfbuzz-subset0:amd64 (12.3.2-2+b2) ... Removing libharfbuzz0b:amd64 (12.3.2-2+b2) ... Removing libfribidi0:amd64 (1.0.16-5+b1) ... Removing python3-lxml:amd64 (6.1.3-1) ... Removing libxslt1.1:amd64 (1.1.45-0.1) ... Removing libgcrypt20:amd64 (1.12.4-2) ... Removing python3-numpy (1:2.4.6+ds-5) ... Removing liblapack3:amd64 (3.12.1-8) ... Removing libgfortran5:amd64 (16.2.0-3) ... Removing libgpg-error0:amd64 (1.61-5) ... Removing libgraphite2-3:amd64 (1.3.15-2) ... Removing libhwy1t64:amd64 (1.3.0-5.1) ... Removing liblcms2-2:amd64 (2.19.1-1) ... Removing libpixman-1-0:amd64 (0.46.4-1+b2) ... Removing libqhull-r8.0:amd64 (2020.2-9) ... Removing libsharpyuv0:amd64 (1.6.0-0.1) ... Removing libthai-data (0.1.30-3) ... Removing libxcb-render0:amd64 (1.17.0-2+b2) ... Removing libxcb-shm0:amd64 (1.17.0-2+b2) ... Removing libxext6:amd64 (2:1.3.4-1+b4) ... Removing libxrender1:amd64 (1:0.9.12-1+b2) ... Removing python3-zopfli (0.4.3-2) ... Removing libzopfli1 (1.0.3-3) ... Removing python3-brotli (1.2.0-4+b1) ... Removing python3-decorator (5.3.1-1) ... Removing python3-lz4 (4.4.5+dfsg-1+b1) ... Removing python3-sympy (1.14.0-6) ... Removing python3-mpmath (1.4.1-4) ... Removing python3-numpy-dev:amd64 (1:2.4.6+ds-5) ... Removing unicode-data (17.0.0-2) ... Removing libgdk-pixbuf-2.0-0:amd64 (2.44.8+dfsg-1) ... Removing glycin-thumbnailers (2.2.3+ds-1) ... Removing libglycin-2-0:amd64 (2.2.3+ds-1) ... Removing libfontconfig1:amd64 (2.17.1-5) ... Removing fontconfig-config (2.17.1-5) ... Removing fonts-dejavu-core (2.37-9) ... Removing fonts-dejavu-mono (2.37-9) ... Removing shared-mime-info (2.4-5+b3) ... Removing libglib2.0-0t64:amd64 (2.90.1-2) ... Removing libatomic1:amd64 (16.2.0-3) ... Removing libblas3:amd64 (3.12.1-8) ... Removing libheif-plugin-dav1d:amd64 (1.23.6-2) ... Removing libdav1d7:amd64 (1.5.4-1) ... Removing python3 (3.14.7-3) ... Removing python3.14 (3.14.8-1) ... Removing python3-minimal (3.14.7-3) ... Removing python3.14-minimal (3.14.8-1) ... Removing libexpat1:amd64 (2.9.0-1) ... Removing libpython3-stdlib:amd64 (3.14.7-3) ... Removing libpython3.14-stdlib:amd64 (3.14.8-1) ... find: '/usr/lib/python3': No such file or directory Removing libffi8:amd64 (3.8.0-2) ... Removing libfreetype6:amd64 (2.14.3+dfsg-3) ... Removing libgdk-pixbuf2.0-common (2.44.8+dfsg-1) ... Removing libpng16-16t64:amd64 (1.6.59-1) ... Removing libpython3.14-minimal:amd64 (3.14.8-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.3-4) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing libsqlite3-0:amd64 (3.53.4-2) ... Removing libx11-6:amd64 (2:1.8.13-1) ... Removing libx11-data (2:1.8.13-1) ... Removing libxcb1:amd64 (1.17.0-2+b2) ... Removing libxau6:amd64 (1:1.0.11-1+b2) ... Removing libxdmcp6:amd64 (1:1.1.5-2+b1) ... Removing libxml2-16:amd64 (2.15.4+dfsg-1) ... Removing media-types (14.0.0) ... Removing netbase (6.6) ... Removing readline-common (8.3-4) ... Removing libbrotli1:amd64 (1.2.0-4+b1) ... Processing triggers for procps (2:4.0.7-1) ... Processing triggers for libc-bin (2.43-7) ... 7m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'remove', '--allow-remove-essential', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bubblewrap', 'build-essential', 'bzip2', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3.1:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-16', 'cpp-16-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'cutadapt', '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', 'docutils-common', 'dpkg-dev', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-font-awesome-legacy', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++-', 'g++-16', 'g++-16-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-16', 'gcc-16-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'git', 'git-man', 'glycin-loaders', 'glycin-thumbnailers', 'gsettings-desktop-schemas', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'junit4', 'libabsl20260526:amd64', 'libaom3:amd64', 'libapache-pom-java', 'libapparmor1:amd64', 'libasan8: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', 'libavif16:amd64', 'libbigwig0t64:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.92.0:amd64', 'libboost-iostreams1.92.0:amd64', 'libboost-program-options1.92.0:amd64', 'libboost-regex1.92-dev:amd64', 'libboost-regex1.92.0:amd64', 'libboost1.92-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcc1-0:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libezmorph-java', 'libffi8:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-2:amd64', 'libgbm1:amd64', 'libgcc-16-dev:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libglycin-2-0:amd64', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libhamcrest-java', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libheif-plugin-dav1d:amd64', 'libheif-plugin-libde265:amd64', 'libheif1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwasan0:amd64', 'libhwloc15:amd64', 'libhwy1t64:amd64', 'libice6:amd64', 'libicu78:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libisal2:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjaxen-java', 'libjbig0:amd64', 'libjbzip2-java', 'libjemalloc2:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-datatables-extensions', 'libjs-jquery-metadata', 'libjs-jquery-selectize.js', 'libjs-jquery-tablesorter', 'libjs-jquery-ui', 'libjs-json', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-sphinxdoc', 'libjs-twitter-bootstrap-datepicker', 'libjson-java', 'libjson-perl', 'libjxl0.11:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libllvm22:amd64', 'liblog4j1.2-java', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnlopt1:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper2:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.42:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.14:amd64', 'libpython3.14-minimal:amd64', 'libpython3.14-stdlib:amd64', 'libqhull-r8.0:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'libreadline8t64:amd64', 'librhino-java', 'librsvg2-2:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsframe3:amd64', 'libsharpyuv0:amd64', 'libslf4j-java', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libstaden-read14t64:amd64', 'libstdc++-16-dev:amd64', 'libsvtav1enc4:amd64', 'libsystemd-shared:amd64', 'libtasn1-6:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6: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', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxom-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxres1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libzopfli1', 'linux-libc-dev', 'make', 'media-types', 'megadepth', 'mesa-libgallium:amd64', 'multiqc', 'ncbi-vdb-data', 'netbase', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-25-jre:amd64', 'openjdk-25-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'patch', 'pci.ids', 'perl', 'perl-modules-5.42', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-alabaster', 'python3-attr', 'python3-babel', 'python3-brotli', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-coloredlogs', 'python3-colormath', 'python3-configargparse', 'python3-connection-pool', 'python3-contourpy', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-defusedxml', 'python3-dnaio', 'python3-docutils', 'python3-dpath', 'python3-fastjsonschema', 'python3-fonttools', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-humanize', 'python3-idna', 'python3-imagesize', 'python3-jinja2', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-jupyter-core', 'python3-kiwisolver', 'python3-linkify-it', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markdown-it', 'python3-markupsafe', 'python3-matplotlib', 'python3-mdurl', 'python3-minimal', 'python3-mpmath', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-numpydoc', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-plac', 'python3-platformdirs', 'python3-plotly', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pyaml-env', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pysam', 'python3-pytz', 'python3-referencing', 'python3-requests', 'python3-retry', 'python3-rich', 'python3-rich-click', 'python3-roman-numerals', 'python3-rpds-py', 'python3-scipy', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-throttler', 'python3-tk', 'python3-toposort', 'python3-traitlets', 'python3-uc-micro', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yte', 'python3-zopfli', 'python3.14', 'python3.14-minimal', 'python3.14-tk', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-cigarillo', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-genomeinfodb', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-seqinfo', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-boot', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-class', 'r-cran-cli', 'r-cran-clock', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-colourpicker', 'r-cran-commonmark', 'r-cran-conquer', 'r-cran-corrplot', 'r-cran-cowplot', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-crosstalk', 'r-cran-curl', 'r-cran-data.table', 'r-cran-deriv', 'r-cran-diagram', 'r-cran-digest', 'r-cran-doby', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-evaluate', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-foreach', 'r-cran-forecast', 'r-cran-formatr', 'r-cran-formula', 'r-cran-fracdiff', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-future', 'r-cran-future.apply', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-ggpubr', 'r-cran-ggrepel', 'r-cran-ggsci', 'r-cran-ggsignif', 'r-cran-globals', 'r-cran-glue', 'r-cran-gower', 'r-cran-gprofiler2', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-hardhat', 'r-cran-highr', 'r-cran-htmltools', 'r-cran-htmlwidgets', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-ipred', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-kernsmooth', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lava', 'r-cran-lazyeval', 'r-cran-lifecycle', 'r-cran-listenv', 'r-cran-littler', 'r-cran-lme4', 'r-cran-lmtest', 'r-cran-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-microbenchmark', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-modelr', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-otel', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-polynom', 'r-cran-proc', 'r-cran-prodlim', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rbibutils', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-rdpack', 'r-cran-recipes', 'r-cran-reformulas', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rstatix', 'r-cran-s7', 'r-cran-sass', 'r-cran-scales', 'r-cran-shape', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sparsem', 'r-cran-sparsevctrs', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-urca', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zoo', 'r-pkg-team-core-architecture', 'readline-common', 'salmon', 'samtools', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'systemd', 'systemd-sysv', 'trim-galore', 'unicode-data', 'unzip', 'user-session-migration', 'x11-common', 'xdg-utils', 'xkb-data', 'xml-core', 'xz-utils', 'zip', 'pigx-rnaseq'] 7m7.6s INFO: Running scripts post_remove 7m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_remove_cleanup'] 7m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_remove_cleanup'] 7m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_remove_exceptions'] 7m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_remove_exceptions'] 7m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bubblewrap', 'build-essential', 'bzip2', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3.1:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-16', 'cpp-16-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'cutadapt', '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', 'docutils-common', 'dpkg-dev', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-font-awesome-legacy', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++', 'g++-16', 'g++-16-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-16', 'gcc-16-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'git', 'git-man', 'glycin-loaders', 'glycin-thumbnailers', 'gsettings-desktop-schemas', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'junit4', 'libabsl20260526:amd64', 'libaom3:amd64', 'libapache-pom-java', 'libapparmor1:amd64', 'libasan8: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', 'libavif16:amd64', 'libbigwig0t64:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.92.0:amd64', 'libboost-iostreams1.92.0:amd64', 'libboost-program-options1.92.0:amd64', 'libboost-regex1.92-dev:amd64', 'libboost-regex1.92.0:amd64', 'libboost1.92-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcc1-0:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libezmorph-java', 'libffi8:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-2:amd64', 'libgbm1:amd64', 'libgcc-16-dev:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libglycin-2-0:amd64', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libhamcrest-java', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libheif-plugin-dav1d:amd64', 'libheif-plugin-libde265:amd64', 'libheif1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwasan0:amd64', 'libhwloc15:amd64', 'libhwy1t64:amd64', 'libice6:amd64', 'libicu78:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libisal2:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjaxen-java', 'libjbig0:amd64', 'libjbzip2-java', 'libjemalloc2:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-datatables-extensions', 'libjs-jquery-metadata', 'libjs-jquery-selectize.js', 'libjs-jquery-tablesorter', 'libjs-jquery-ui', 'libjs-json', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-sphinxdoc', 'libjs-twitter-bootstrap-datepicker', 'libjson-java', 'libjson-perl', 'libjxl0.11:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libllvm22:amd64', 'liblog4j1.2-java', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnlopt1:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 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'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6: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', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxom-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxres1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libzopfli1', 'linux-libc-dev', 'make', 'media-types', 'megadepth', 'mesa-libgallium:amd64', 'multiqc', 'ncbi-vdb-data', 'netbase', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-25-jre:amd64', 'openjdk-25-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'patch', 'pci.ids', 'perl', 'perl-modules-5.42', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-alabaster', 'python3-attr', 'python3-babel', 'python3-brotli', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-coloredlogs', 'python3-colormath', 'python3-configargparse', 'python3-connection-pool', 'python3-contourpy', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-defusedxml', 'python3-dnaio', 'python3-docutils', 'python3-dpath', 'python3-fastjsonschema', 'python3-fonttools', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-humanize', 'python3-idna', 'python3-imagesize', 'python3-jinja2', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-jupyter-core', 'python3-kiwisolver', 'python3-linkify-it', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markdown-it', 'python3-markupsafe', 'python3-matplotlib', 'python3-mdurl', 'python3-minimal', 'python3-mpmath', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-numpydoc', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-plac', 'python3-platformdirs', 'python3-plotly', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pyaml-env', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pysam', 'python3-pytz', 'python3-referencing', 'python3-requests', 'python3-retry', 'python3-rich', 'python3-rich-click', 'python3-roman-numerals', 'python3-rpds-py', 'python3-scipy', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-throttler', 'python3-tk', 'python3-toposort', 'python3-traitlets', 'python3-uc-micro', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yte', 'python3-zopfli', 'python3.14', 'python3.14-minimal', 'python3.14-tk', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-cigarillo', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-genomeinfodb', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-seqinfo', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-boot', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-class', 'r-cran-cli', 'r-cran-clock', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-colourpicker', 'r-cran-commonmark', 'r-cran-conquer', 'r-cran-corrplot', 'r-cran-cowplot', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-crosstalk', 'r-cran-curl', 'r-cran-data.table', 'r-cran-deriv', 'r-cran-diagram', 'r-cran-digest', 'r-cran-doby', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-evaluate', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-foreach', 'r-cran-forecast', 'r-cran-formatr', 'r-cran-formula', 'r-cran-fracdiff', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-future', 'r-cran-future.apply', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-ggpubr', 'r-cran-ggrepel', 'r-cran-ggsci', 'r-cran-ggsignif', 'r-cran-globals', 'r-cran-glue', 'r-cran-gower', 'r-cran-gprofiler2', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-hardhat', 'r-cran-highr', 'r-cran-htmltools', 'r-cran-htmlwidgets', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-ipred', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-kernsmooth', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lava', 'r-cran-lazyeval', 'r-cran-lifecycle', 'r-cran-listenv', 'r-cran-littler', 'r-cran-lme4', 'r-cran-lmtest', 'r-cran-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-microbenchmark', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-modelr', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-otel', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-polynom', 'r-cran-proc', 'r-cran-prodlim', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rbibutils', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-rdpack', 'r-cran-recipes', 'r-cran-reformulas', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rstatix', 'r-cran-s7', 'r-cran-sass', 'r-cran-scales', 'r-cran-shape', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sparsem', 'r-cran-sparsevctrs', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-urca', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zoo', 'r-pkg-team-core-architecture', 'readline-common', 'salmon', 'samtools', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'systemd', 'systemd-sysv', 'trim-galore', 'unicode-data', 'unzip', 'user-session-migration', 'x11-common', 'xdg-utils', 'xkb-data', 'xml-core', 'xz-utils', 'zip'] 7m8.6s DUMP: (Reading database ... 5632 files and directories currently installed.) Purging configuration files for adwaita-icon-theme (51.0-1) ... dpkg: warning: ignoring request to remove at-spi2-common which is not installed Purging configuration files for binutils (2.47-6) ... Purging configuration files for binutils-common:amd64 (2.47-6) ... dpkg: warning: ignoring request to remove binutils-x86-64-linux-gnu which is not installed dpkg: warning: ignoring request to remove bubblewrap which is not installed dpkg: warning: ignoring request to remove build-essential which is not installed dpkg: warning: ignoring request to remove bzip2 which is not installed Purging configuration files for ca-certificates (20260816) ... Removing dangling symlinks from /etc/ssl/certs... done. 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warning: ignoring request to remove libngtcp2-crypto-ossl0 which is not installed dpkg: warning: ignoring request to remove libnlopt1 which is not installed dpkg: warning: ignoring request to remove libnspr4 which is not installed dpkg: warning: ignoring request to remove libnss3 which is not installed dpkg: warning: ignoring request to remove libnuma1 which is not installed dpkg: warning: ignoring request to remove libopenjp2-7 which is not installed dpkg: warning: ignoring request to remove libp11-kit0 which is not installed dpkg: warning: ignoring request to remove libpam-systemd which is not installed dpkg: warning: ignoring request to remove libpango-1.0-0 which is not installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which is not installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which is not installed dpkg: warning: ignoring request to remove libpaper-utils which is not installed Purging configuration files for libpaper2:amd64 (2.2.5-0.4) ... dpkg: warning: ignoring request to remove libpciaccess0 which is not installed dpkg: warning: ignoring request to remove libpcsclite1 which is not installed dpkg: warning: ignoring request to remove libperl5.42 which is not installed dpkg: warning: ignoring request to remove libpixman-1-0 which is not installed dpkg: warning: ignoring request to remove libpng16-16t64 which is not installed dpkg: warning: ignoring request to remove libpsl5t64 which is not installed dpkg: warning: ignoring request to remove libpython3-stdlib which is not installed dpkg: warning: ignoring request to remove libpython3.14 which is not installed Purging configuration files for libpython3.14-minimal:amd64 (3.14.8-1) ... dpkg: warning: ignoring request to remove libpython3.14-stdlib which is not installed dpkg: warning: ignoring request to remove libqhull-r8.0 which is not installed dpkg: warning: ignoring request to remove libquadmath0 which is not installed dpkg: warning: ignoring request to remove 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which is not installed dpkg: warning: ignoring request to remove libsnappy-jni which is not installed dpkg: warning: ignoring request to remove libsnappy1v5 which is not installed dpkg: warning: ignoring request to remove libsqlite3-0 which is not installed dpkg: warning: ignoring request to remove libssh2-1t64 which is not installed dpkg: warning: ignoring request to remove libstaden-read14t64 which is not installed dpkg: warning: ignoring request to remove libstdc++-16-dev which is not installed dpkg: warning: ignoring request to remove libsvtav1enc4 which is not installed dpkg: warning: ignoring request to remove libsystemd-shared which is not installed dpkg: warning: ignoring request to remove libtasn1-6 which is not installed dpkg: warning: ignoring request to remove libtbb12 which is not installed dpkg: warning: ignoring request to remove libtbbbind-2-5 which is not installed dpkg: warning: ignoring request to remove libtbbmalloc2 which is not installed dpkg: warning: ignoring request to remove libtcl8.6 which is not installed dpkg: warning: ignoring request to remove libthai-data which is not installed dpkg: warning: ignoring request to remove libthai0 which is not installed dpkg: warning: ignoring request to remove libtiff6 which is not installed Purging configuration files for libtirpc-common (1.3.7+ds-1) ... Purging configuration files for libtirpc3t64:amd64 (1.3.7+ds-1) ... dpkg: warning: ignoring request to remove libtk8.6 which is not installed dpkg: warning: ignoring request to remove libtsan2 which is not installed dpkg: warning: ignoring request to remove libubsan1 which is not installed dpkg: warning: ignoring request to remove libunistring5 which is not installed dpkg: warning: ignoring request to remove libuv1t64 which is not installed dpkg: warning: ignoring request to remove libvulkan1 which is not installed dpkg: warning: ignoring request to remove libwayland-client0 which is not installed dpkg: warning: ignoring request to remove libwayland-cursor0 which is not installed dpkg: warning: ignoring request to remove libwayland-egl1 which is not installed dpkg: warning: ignoring request to remove libwebp7 which is not installed dpkg: warning: ignoring request to remove libwebpdemux2 which is not installed dpkg: warning: ignoring request to remove libwebpmux3 which is not installed dpkg: warning: ignoring request to remove libx11-6 which is not installed dpkg: warning: ignoring request to remove libx11-data which is not installed dpkg: warning: ignoring request to remove libx11-xcb1 which is not installed dpkg: warning: ignoring request to remove libxau6 which is not installed dpkg: warning: ignoring request to remove libxcb-dri3-0 which is not installed dpkg: warning: ignoring request to remove libxcb-glx0 which is not installed dpkg: warning: ignoring request to remove libxcb-present0 which is not installed dpkg: warning: ignoring request to remove libxcb-randr0 which is not installed dpkg: warning: ignoring request to remove libxcb-render0 which is not installed dpkg: warning: ignoring request to remove libxcb-shm0 which is not installed dpkg: warning: ignoring request to remove libxcb-sync1 which is not installed dpkg: warning: ignoring request to remove libxcb-xfixes0 which is not installed dpkg: warning: ignoring request to remove libxcb1 which is not installed dpkg: warning: ignoring request to remove libxcomposite1 which is not installed dpkg: warning: ignoring request to remove libxcursor1 which is not installed dpkg: warning: ignoring request to remove libxdamage1 which is not installed dpkg: warning: ignoring request to remove libxdmcp6 which is not installed dpkg: warning: ignoring request to remove libxerces2-java which is not installed dpkg: warning: ignoring request to remove libxext6 which is not installed dpkg: warning: ignoring request to remove libxfixes3 which is not installed dpkg: warning: ignoring request to remove libxft2 which is not installed dpkg: warning: ignoring request to remove libxi6 which is not installed dpkg: warning: ignoring request to remove libxinerama1 which is not installed dpkg: warning: ignoring request to remove libxkbcommon0 which is not installed dpkg: warning: ignoring request to remove libxml-commons-external-java which is not installed Purging configuration files for libxml-commons-resolver1.1-java (1.2-11) ... dpkg: warning: while removing libxml-commons-resolver1.1-java, directory '/etc/xml' not empty so not removed dpkg: warning: ignoring request to remove libxml2-16 which is not installed dpkg: warning: ignoring request to remove libxom-java which is not installed dpkg: warning: ignoring request to remove libxrandr2 which is not installed dpkg: warning: ignoring request to remove libxrender1 which is not installed dpkg: warning: ignoring request to remove libxres1 which is not installed dpkg: warning: ignoring request to remove libxshmfence1 which is not installed dpkg: warning: ignoring request to remove libxslt1.1 which is not installed dpkg: warning: ignoring request to remove libxss1 which is not installed dpkg: warning: ignoring request to remove libxt6t64 which is not installed dpkg: warning: ignoring request to remove libxtst6 which is not installed dpkg: warning: ignoring request to remove libxxf86vm1 which is not installed dpkg: warning: ignoring request to remove libyaml-0-2 which is not installed dpkg: warning: ignoring request to remove libyuv0 which is not installed dpkg: warning: ignoring request to remove libz3-4 which is not installed dpkg: warning: ignoring request to remove libzopfli1 which is not installed dpkg: warning: ignoring request to remove linux-libc-dev which is not installed dpkg: warning: ignoring request to remove make which is not installed Purging configuration files for media-types (14.0.0) ... dpkg: warning: ignoring request to remove megadepth which is not installed dpkg: warning: ignoring request to remove mesa-libgallium which is not installed dpkg: warning: ignoring request to remove multiqc which is not installed Purging configuration files for ncbi-vdb-data (3.4.1+dfsg-1) ... Purging configuration files for netbase (6.6) ... dpkg: warning: ignoring request to remove node-bootstrap-sass which is not installed dpkg: warning: ignoring request to remove node-html5shiv which is not installed dpkg: warning: ignoring request to remove node-normalize.css which is not installed dpkg: warning: ignoring request to remove openjdk-25-jre which is not installed Purging configuration files for openjdk-25-jre-headless:amd64 (25.0.5~7ea-2) ... Purging configuration files for openssl (3.6.5-1) ... dpkg: warning: ignoring request to remove pandoc which is not installed dpkg: warning: ignoring request to remove pandoc-data which is not installed dpkg: warning: ignoring request to remove patch which is not installed dpkg: warning: ignoring request to remove pci.ids which is not installed Purging configuration files for perl (5.42.3-1) ... dpkg: warning: ignoring request to remove perl-modules-5.42 which is not installed dpkg: warning: ignoring request to remove pigz which is not installed dpkg: warning: ignoring request to remove python-babel-localedata which is not installed Purging configuration files for python-matplotlib-data (3.10.9+dfsg1-2) ... Purging configuration files for python3 (3.14.7-3) ... dpkg: warning: ignoring request to remove python3-alabaster which is not installed dpkg: warning: ignoring request to remove python3-attr which is not installed dpkg: warning: ignoring request to remove python3-babel which is not installed dpkg: warning: ignoring request to remove python3-brotli which is not installed dpkg: warning: ignoring request to remove python3-certifi which is not installed dpkg: warning: ignoring request to remove python3-chardet which is not installed dpkg: warning: ignoring request to remove python3-charset-normalizer which is not installed dpkg: warning: ignoring request to remove python3-click which is not installed dpkg: warning: ignoring request to remove python3-coloredlogs which is not installed dpkg: warning: ignoring request to remove python3-colormath which is not installed dpkg: warning: ignoring request to remove python3-configargparse which is not installed dpkg: warning: ignoring request to remove python3-connection-pool which is not installed dpkg: warning: ignoring request to remove python3-contourpy which is not installed dpkg: warning: ignoring request to remove python3-cutadapt which is not installed dpkg: warning: ignoring request to remove python3-cycler which is not installed dpkg: warning: ignoring request to remove python3-dateutil which is not installed dpkg: warning: ignoring request to remove python3-datrie which is not installed dpkg: warning: ignoring request to remove python3-decorator which is not installed dpkg: warning: ignoring request to remove python3-deeptools which is not installed dpkg: warning: ignoring request to remove python3-deeptoolsintervals which is not installed dpkg: warning: ignoring request to remove python3-defusedxml which is not installed dpkg: warning: ignoring request to remove python3-dnaio which is not installed dpkg: warning: ignoring request to remove python3-docutils which is not installed dpkg: warning: ignoring request to remove python3-dpath which is not installed dpkg: warning: ignoring request to remove python3-fastjsonschema which is not installed dpkg: warning: ignoring request to remove python3-fonttools which is not installed dpkg: warning: ignoring request to remove python3-git which is not installed dpkg: warning: ignoring request to remove python3-gitdb which is not installed dpkg: warning: ignoring request to remove python3-htseq which is not installed dpkg: warning: ignoring request to remove python3-humanfriendly which is not installed dpkg: warning: ignoring request to remove python3-humanize which is not installed dpkg: warning: ignoring request to remove python3-idna which is not installed dpkg: warning: ignoring request to remove python3-imagesize which is not installed dpkg: warning: ignoring request to remove python3-jinja2 which is not installed Purging configuration files for python3-jsonschema (4.26.0-3) ... dpkg: warning: ignoring request to remove python3-jsonschema-specifications which is not installed dpkg: warning: ignoring request to remove python3-jupyter-core which is not installed dpkg: warning: ignoring request to remove python3-kiwisolver which is not installed dpkg: warning: ignoring request to remove python3-linkify-it which is not installed dpkg: warning: ignoring request to remove python3-lxml which is not installed dpkg: warning: ignoring request to remove python3-lz4 which is not installed dpkg: warning: ignoring request to remove python3-lzstring which is not installed dpkg: warning: ignoring request to remove python3-markdown which is not installed dpkg: warning: ignoring request to remove python3-markdown-it which is not installed dpkg: warning: ignoring request to remove python3-markupsafe which is not installed dpkg: warning: ignoring request to remove python3-matplotlib which is not installed dpkg: warning: ignoring request to remove python3-mdurl which is not installed dpkg: warning: ignoring request to remove python3-minimal which is not installed dpkg: warning: ignoring request to remove python3-mpmath which is not installed dpkg: warning: ignoring request to remove python3-nbformat which is not installed dpkg: warning: ignoring request to remove python3-networkx which is not installed Purging configuration files for python3-numpy (1:2.4.6+ds-5) ... dpkg: warning: ignoring request to remove python3-numpy-dev which is not installed dpkg: warning: ignoring request to remove python3-numpydoc which is not installed dpkg: warning: ignoring request to remove python3-packaging which is not installed dpkg: warning: ignoring request to remove python3-pil which is not installed dpkg: warning: ignoring request to remove python3-pil.imagetk which is not installed dpkg: warning: ignoring request to remove python3-plac which is not installed dpkg: warning: ignoring request to remove python3-platformdirs which is not installed dpkg: warning: ignoring request to remove python3-plotly which is not installed dpkg: warning: ignoring request to remove python3-psutil which is not installed dpkg: warning: ignoring request to remove python3-pulp which is not installed dpkg: warning: ignoring request to remove python3-py2bit which is not installed dpkg: warning: ignoring request to remove python3-pyaml-env which is not installed dpkg: warning: ignoring request to remove python3-pybigwig which is not installed dpkg: warning: ignoring request to remove python3-pygments which is not installed dpkg: warning: ignoring request to remove python3-pyparsing which is not installed dpkg: warning: ignoring request to remove python3-pysam which is not installed dpkg: warning: ignoring request to remove python3-pytz which is not installed dpkg: warning: ignoring request to remove python3-referencing which is not installed dpkg: warning: ignoring request to remove python3-requests which is not installed dpkg: warning: ignoring request to remove python3-retry which is not installed dpkg: warning: ignoring request to remove python3-rich which is not installed dpkg: warning: ignoring request to remove python3-rich-click which is not installed dpkg: warning: ignoring request to remove python3-roman-numerals which is not installed dpkg: warning: ignoring request to remove python3-rpds-py which is not installed dpkg: warning: ignoring request to remove python3-scipy which is not installed dpkg: warning: ignoring request to remove python3-smart-open which is not installed dpkg: warning: ignoring request to remove python3-smmap which is not installed dpkg: warning: ignoring request to remove python3-snowballstemmer which is not installed dpkg: warning: ignoring request to remove python3-spectra which is not installed dpkg: warning: ignoring request to remove python3-sphinx which is not installed dpkg: warning: ignoring request to remove python3-stopit which is not installed Purging configuration files for python3-sympy (1.14.0-6) ... dpkg: warning: ignoring request to remove python3-tabulate which is not installed dpkg: warning: ignoring request to remove python3-tenacity which is not installed dpkg: warning: ignoring request to remove python3-throttler which is not installed dpkg: warning: ignoring request to remove python3-tk which is not installed dpkg: warning: ignoring request to remove python3-toposort which is not installed dpkg: warning: ignoring request to remove python3-traitlets which is not installed dpkg: warning: ignoring request to remove python3-uc-micro which is not installed dpkg: warning: ignoring request to remove python3-ufolib2 which is not installed dpkg: warning: ignoring request to remove python3-uharfbuzz which is not installed dpkg: warning: ignoring request to remove python3-urllib3 which is not installed dpkg: warning: ignoring request to remove python3-wrapt which is not installed dpkg: warning: ignoring request to remove python3-xopen which is not installed dpkg: warning: ignoring request to remove python3-yaml which is not installed dpkg: warning: ignoring request to remove python3-yte which is not installed dpkg: warning: ignoring request to remove python3-zopfli which is not installed dpkg: warning: ignoring request to remove python3.14 which is not installed Purging configuration files for python3.14-minimal (3.14.8-1) ... dpkg: warning: ignoring request to remove python3.14-tk which is not installed Purging configuration files for r-base-core (4.6.1-9) ... dpkg: warning: ignoring request to remove r-bioc-biobase which is not installed dpkg: warning: ignoring request to remove r-bioc-biocgenerics which is not installed dpkg: warning: ignoring request to remove r-bioc-biocio which is not installed dpkg: warning: ignoring request to remove r-bioc-biocparallel which is not installed dpkg: warning: ignoring request to remove r-bioc-biostrings which is not installed dpkg: warning: ignoring request to remove r-bioc-cigarillo which is not installed dpkg: warning: ignoring request to remove r-bioc-delayedarray which is not installed dpkg: warning: ignoring request to remove r-bioc-deseq2 which is not installed dpkg: warning: ignoring request to remove r-bioc-genomeinfodb which is not installed dpkg: warning: ignoring request to remove r-bioc-genomicalignments which is not installed dpkg: warning: ignoring request to remove r-bioc-genomicranges which is not installed dpkg: warning: ignoring request to remove r-bioc-iranges which is not installed dpkg: warning: ignoring request to remove r-bioc-matrixgenerics which is not installed dpkg: warning: ignoring request to remove r-bioc-rhtslib which is not installed dpkg: warning: ignoring request to remove r-bioc-rsamtools which is not installed dpkg: warning: ignoring request to remove r-bioc-rtracklayer which is not installed dpkg: warning: ignoring request to remove r-bioc-s4arrays which is not installed dpkg: warning: ignoring request to remove r-bioc-s4vectors which is not installed dpkg: warning: ignoring request to remove r-bioc-seqinfo which is not installed dpkg: warning: ignoring request to remove r-bioc-sparsearray which is not installed dpkg: warning: ignoring request to remove r-bioc-summarizedexperiment which is not installed dpkg: warning: ignoring request to remove r-bioc-tximport which is not installed dpkg: warning: ignoring request to remove r-bioc-ucsc.utils which is not installed dpkg: warning: ignoring request to remove r-bioc-xvector which is not installed dpkg: warning: ignoring request to remove r-cran-abind which is not installed dpkg: warning: ignoring request to remove r-cran-askpass which is not installed dpkg: warning: ignoring request to remove r-cran-backports which is not installed dpkg: warning: ignoring request to remove r-cran-base64enc which is not installed dpkg: warning: ignoring request to remove r-cran-bh which is not installed dpkg: warning: ignoring request to remove r-cran-bitops which is not installed dpkg: warning: ignoring request to remove r-cran-boot which is not installed dpkg: warning: ignoring request to remove r-cran-broom which is not installed dpkg: warning: ignoring request to remove r-cran-bslib which is not installed dpkg: warning: ignoring request to remove r-cran-cachem which is not installed dpkg: warning: ignoring request to remove r-cran-car which is not installed dpkg: warning: ignoring request to remove r-cran-cardata which is not installed dpkg: warning: ignoring request to remove r-cran-caret which is not installed dpkg: warning: ignoring request to remove r-cran-class which is not installed dpkg: warning: ignoring request to remove r-cran-cli which is not installed dpkg: warning: ignoring request to remove r-cran-clock which is not installed dpkg: warning: ignoring request to remove r-cran-codetools which is not installed dpkg: warning: ignoring request to remove r-cran-colorspace which is not installed dpkg: warning: ignoring request to remove r-cran-colourpicker which is not installed dpkg: warning: ignoring request to remove r-cran-commonmark which is not installed dpkg: warning: ignoring request to remove r-cran-conquer which is not installed dpkg: warning: ignoring request to remove r-cran-corrplot which is not installed dpkg: warning: ignoring request to remove r-cran-cowplot which is not installed dpkg: warning: ignoring request to remove r-cran-cpp11 which is not installed dpkg: warning: ignoring request to remove r-cran-crayon which is not installed dpkg: warning: ignoring request to remove r-cran-crosstalk which is not installed dpkg: warning: ignoring request to remove r-cran-curl which is not installed dpkg: warning: ignoring request to remove r-cran-data.table which is not installed dpkg: warning: ignoring request to remove r-cran-deriv which is not installed dpkg: warning: ignoring request to remove r-cran-diagram which is not installed dpkg: warning: ignoring request to remove r-cran-digest which is not installed dpkg: warning: ignoring request to remove r-cran-doby which is not installed dpkg: warning: ignoring request to remove r-cran-dplyr which is not installed dpkg: warning: ignoring request to remove r-cran-dt which is not installed dpkg: warning: ignoring request to remove r-cran-e1071 which is not installed dpkg: warning: ignoring request to remove r-cran-evaluate which is not installed dpkg: warning: ignoring request to remove r-cran-farver which is not installed dpkg: warning: ignoring request to remove r-cran-fastmap which is not installed dpkg: warning: ignoring request to remove r-cran-fontawesome which is not installed dpkg: warning: ignoring request to remove r-cran-foreach which is not installed dpkg: warning: ignoring request to remove r-cran-forecast which is not installed dpkg: warning: ignoring request to remove r-cran-formatr which is not installed dpkg: warning: ignoring request to remove r-cran-formula which is not installed dpkg: warning: ignoring request to remove r-cran-fracdiff which is not installed dpkg: warning: ignoring request to remove r-cran-fs which is not installed dpkg: warning: ignoring request to remove r-cran-futile.logger which is not installed dpkg: warning: ignoring request to remove r-cran-futile.options which is not installed dpkg: warning: ignoring request to remove r-cran-future which is not installed dpkg: warning: ignoring request to remove r-cran-future.apply which is not installed dpkg: warning: ignoring request to remove r-cran-generics which is not installed dpkg: warning: ignoring request to remove r-cran-ggplot2 which is not installed dpkg: warning: ignoring request to remove r-cran-ggpubr which is not installed dpkg: warning: ignoring request to remove r-cran-ggrepel which is not installed dpkg: warning: ignoring request to remove r-cran-ggsci which is not installed dpkg: warning: ignoring request to remove r-cran-ggsignif which is not installed dpkg: warning: ignoring request to remove r-cran-globals which is not installed dpkg: warning: ignoring request to remove r-cran-glue which is not installed dpkg: warning: ignoring request to remove r-cran-gower which is not installed dpkg: warning: ignoring request to remove r-cran-gprofiler2 which is not installed dpkg: warning: ignoring request to remove r-cran-gridextra which is not installed dpkg: warning: ignoring request to remove r-cran-gtable which is not installed dpkg: warning: ignoring request to remove r-cran-hardhat which is not installed dpkg: warning: ignoring request to remove r-cran-highr which is not installed dpkg: warning: ignoring request to remove r-cran-htmltools which is not installed dpkg: warning: ignoring request to remove r-cran-htmlwidgets which is not installed dpkg: warning: ignoring request to remove r-cran-httpuv which is not installed dpkg: warning: ignoring request to remove r-cran-httr which is not installed dpkg: warning: ignoring request to remove r-cran-ipred which is not installed dpkg: warning: ignoring request to remove r-cran-isoband which is not installed dpkg: warning: ignoring request to remove r-cran-iterators which is not installed dpkg: warning: ignoring request to remove r-cran-jquerylib which is not installed dpkg: warning: ignoring request to remove r-cran-jsonlite which is not installed dpkg: warning: ignoring request to remove r-cran-kernsmooth which is not installed dpkg: warning: ignoring request to remove r-cran-knitr which is not installed dpkg: warning: ignoring request to remove r-cran-labeling which is not installed dpkg: warning: ignoring request to remove r-cran-lambda.r which is not installed dpkg: warning: ignoring request to remove r-cran-later which is not installed dpkg: warning: ignoring request to remove r-cran-lattice which is not installed dpkg: warning: ignoring request to remove r-cran-lava which is not installed dpkg: warning: ignoring request to remove r-cran-lazyeval which is not installed dpkg: warning: ignoring request to remove r-cran-lifecycle which is not installed dpkg: warning: ignoring request to remove r-cran-listenv which is not installed dpkg: warning: ignoring request to remove r-cran-littler which is not installed dpkg: warning: ignoring request to remove r-cran-lme4 which is not installed dpkg: warning: ignoring request to remove r-cran-lmtest which is not installed dpkg: warning: ignoring request to remove r-cran-locfit which is not installed dpkg: warning: ignoring request to remove r-cran-lubridate which is not installed dpkg: warning: ignoring request to remove r-cran-magrittr which is not installed dpkg: warning: ignoring request to remove r-cran-mass which is not installed dpkg: warning: ignoring request to remove r-cran-matrix which is not installed dpkg: warning: ignoring request to remove r-cran-matrixmodels which is not installed dpkg: warning: ignoring request to remove r-cran-matrixstats which is not installed dpkg: warning: ignoring request to remove r-cran-memoise which is not installed dpkg: warning: ignoring request to remove r-cran-mgcv which is not installed dpkg: warning: ignoring request to remove r-cran-microbenchmark which is not installed dpkg: warning: ignoring request to remove r-cran-mime which is not installed dpkg: warning: ignoring request to remove r-cran-miniui which is not installed dpkg: warning: ignoring request to remove r-cran-minqa which is not installed dpkg: warning: ignoring request to remove r-cran-modelmetrics which is not installed dpkg: warning: ignoring request to remove r-cran-modelr which is not installed dpkg: warning: ignoring request to remove r-cran-nlme which is not installed dpkg: warning: ignoring request to remove r-cran-nloptr which is not installed dpkg: warning: ignoring request to remove r-cran-nnet which is not installed dpkg: warning: ignoring request to remove r-cran-numderiv which is not installed dpkg: warning: ignoring request to remove r-cran-openssl which is not installed dpkg: warning: ignoring request to remove r-cran-otel which is not installed dpkg: warning: ignoring request to remove r-cran-parallelly which is not installed dpkg: warning: ignoring request to remove r-cran-pbkrtest which is not installed dpkg: warning: ignoring request to remove r-cran-pheatmap which is not installed dpkg: warning: ignoring request to remove r-cran-pillar which is not installed dpkg: warning: ignoring request to remove r-cran-pkgconfig which is not installed dpkg: warning: ignoring request to remove r-cran-pkgkitten which is not installed dpkg: warning: ignoring request to remove r-cran-plotly which is not installed dpkg: warning: ignoring request to remove r-cran-plyr which is not installed dpkg: warning: ignoring request to remove r-cran-polynom which is not installed dpkg: warning: ignoring request to remove r-cran-proc which is not installed dpkg: warning: ignoring request to remove r-cran-prodlim which is not installed dpkg: warning: ignoring request to remove r-cran-progressr which is not installed dpkg: warning: ignoring request to remove r-cran-promises which is not installed dpkg: warning: ignoring request to remove r-cran-proxy which is not installed dpkg: warning: ignoring request to remove r-cran-purrr which is not installed dpkg: warning: ignoring request to remove r-cran-quantreg which is not installed dpkg: warning: ignoring request to remove r-cran-r6 which is not installed dpkg: warning: ignoring request to remove r-cran-rappdirs which is not installed dpkg: warning: ignoring request to remove r-cran-rbibutils which is not installed dpkg: warning: ignoring request to remove r-cran-rcolorbrewer which is not installed dpkg: warning: ignoring request to remove r-cran-rcpp which is not installed dpkg: warning: ignoring request to remove r-cran-rcpparmadillo which is not installed dpkg: warning: ignoring request to remove r-cran-rcppeigen which is not installed dpkg: warning: ignoring request to remove r-cran-rcurl which is not installed dpkg: warning: ignoring request to remove r-cran-rdpack which is not installed dpkg: warning: ignoring request to remove r-cran-recipes which is not installed dpkg: warning: ignoring request to remove r-cran-reformulas which is not installed dpkg: warning: ignoring request to remove r-cran-reshape2 which is not installed dpkg: warning: ignoring request to remove r-cran-restfulr which is not installed dpkg: warning: ignoring request to remove r-cran-rjson which is not installed dpkg: warning: ignoring request to remove r-cran-rlang which is not installed dpkg: warning: ignoring request to remove r-cran-rmarkdown which is not installed dpkg: warning: ignoring request to remove r-cran-rpart which is not installed dpkg: warning: ignoring request to remove r-cran-rstatix which is not installed dpkg: warning: ignoring request to remove r-cran-s7 which is not installed dpkg: warning: ignoring request to remove r-cran-sass which is not installed dpkg: warning: ignoring request to remove r-cran-scales which is not installed dpkg: warning: ignoring request to remove r-cran-shape which is not installed dpkg: warning: ignoring request to remove r-cran-shiny which is not installed dpkg: warning: ignoring request to remove r-cran-shinyjs which is not installed dpkg: warning: ignoring request to remove r-cran-snow which is not installed dpkg: warning: ignoring request to remove r-cran-sourcetools which is not installed dpkg: warning: ignoring request to remove r-cran-sparsem which is not installed dpkg: warning: ignoring request to remove r-cran-sparsevctrs which is not installed dpkg: warning: ignoring request to remove r-cran-squarem which is not installed dpkg: warning: ignoring request to remove r-cran-statmod which is not installed dpkg: warning: ignoring request to remove r-cran-stringi which is not installed dpkg: warning: ignoring request to remove r-cran-stringr which is not installed dpkg: warning: ignoring request to remove r-cran-survival which is not installed dpkg: warning: ignoring request to remove r-cran-sys which is not installed dpkg: warning: ignoring request to remove r-cran-tibble which is not installed dpkg: warning: ignoring request to remove r-cran-tidyr which is not installed dpkg: warning: ignoring request to remove r-cran-tidyselect which is not installed dpkg: warning: ignoring request to remove r-cran-timechange which is not installed dpkg: warning: ignoring request to remove r-cran-timedate which is not installed dpkg: warning: ignoring request to remove r-cran-tinytex which is not installed dpkg: warning: ignoring request to remove r-cran-tzdb which is not installed dpkg: warning: ignoring request to remove r-cran-urca which is not installed dpkg: warning: ignoring request to remove r-cran-utf8 which is not installed dpkg: warning: ignoring request to remove r-cran-vctrs which is not installed dpkg: warning: ignoring request to remove r-cran-viridislite which is not installed dpkg: warning: ignoring request to remove r-cran-withr which is not installed dpkg: warning: ignoring request to remove r-cran-xfun which is not installed dpkg: warning: ignoring request to remove r-cran-xml which is not installed dpkg: warning: ignoring request to remove r-cran-xtable which is not installed dpkg: warning: ignoring request to remove r-cran-yaml which is not installed dpkg: warning: ignoring request to remove r-cran-zoo which is not installed dpkg: warning: ignoring request to remove r-pkg-team-core-architecture which is not installed Purging configuration files for readline-common (8.3-4) ... dpkg: warning: ignoring request to remove salmon which is not installed dpkg: warning: ignoring request to remove samtools which is not installed Purging configuration files for sgml-base (1.31+nmu1) ... Purging configuration files for shared-mime-info (2.4-5+b3) ... dpkg: warning: ignoring request to remove snakemake which is not installed dpkg: warning: ignoring request to remove sphinx-common which is not installed Purging configuration files for systemd (262.1-1) ... dpkg: warning: ignoring request to remove systemd-sysv which is not installed dpkg: warning: ignoring request to remove trim-galore which is not installed dpkg: warning: ignoring request to remove unicode-data which is not installed dpkg: warning: ignoring request to remove unzip which is not installed Purging configuration files for user-session-migration (0.5.2) ... Purging configuration files for x11-common (1:7.7+26) ... dpkg: warning: ignoring request to remove xdg-utils which is not installed Purging configuration files for xkb-data (2.48-1) ... Purging configuration files for xml-core (0.21) ... dpkg: warning: ignoring request to remove xz-utils which is not installed dpkg: warning: ignoring request to remove zip which is not installed 7m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bubblewrap', 'build-essential', 'bzip2', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3.1:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-16', 'cpp-16-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'cutadapt', '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', 'docutils-common', 'dpkg-dev', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-font-awesome-legacy', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++', 'g++-16', 'g++-16-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-16', 'gcc-16-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'git', 'git-man', 'glycin-loaders', 'glycin-thumbnailers', 'gsettings-desktop-schemas', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'junit4', 'libabsl20260526:amd64', 'libaom3:amd64', 'libapache-pom-java', 'libapparmor1:amd64', 'libasan8: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', 'libavif16:amd64', 'libbigwig0t64:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.92.0:amd64', 'libboost-iostreams1.92.0:amd64', 'libboost-program-options1.92.0:amd64', 'libboost-regex1.92-dev:amd64', 'libboost-regex1.92.0:amd64', 'libboost1.92-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcc1-0:amd64', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2t64:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libezmorph-java', 'libffi8:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-2:amd64', 'libgbm1:amd64', 'libgcc-16-dev:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglib2.0-0t64:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libglycin-2-0:amd64', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0t64:amd64', 'libgtk-3-common', 'libhamcrest-java', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libheif-plugin-dav1d:amd64', 'libheif-plugin-libde265:amd64', 'libheif1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwasan0:amd64', 'libhwloc15:amd64', 'libhwy1t64:amd64', 'libice6:amd64', 'libicu78:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libisal2:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjaxen-java', 'libjbig0:amd64', 'libjbzip2-java', 'libjemalloc2:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-datatables-extensions', 'libjs-jquery-metadata', 'libjs-jquery-selectize.js', 'libjs-jquery-tablesorter', 'libjs-jquery-ui', 'libjs-json', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-sphinxdoc', 'libjs-twitter-bootstrap-datepicker', 'libjson-java', 'libjson-perl', 'libjxl0.11:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libllvm22:amd64', 'liblog4j1.2-java', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnlopt1:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper2:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.42:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.14:amd64', 'libpython3.14-minimal:amd64', 'libpython3.14-stdlib:amd64', 'libqhull-r8.0:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'libreadline8t64:amd64', 'librhino-java', 'librsvg2-2:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsframe3:amd64', 'libsharpyuv0:amd64', 'libslf4j-java', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libstaden-read14t64:amd64', 'libstdc++-16-dev:amd64', 'libsvtav1enc4:amd64', 'libsystemd-shared:amd64', 'libtasn1-6:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6: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', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxom-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxres1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libzopfli1', 'linux-libc-dev', 'make', 'media-types', 'megadepth', 'mesa-libgallium:amd64', 'multiqc', 'ncbi-vdb-data', 'netbase', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-25-jre:amd64', 'openjdk-25-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'patch', 'pci.ids', 'perl', 'perl-modules-5.42', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-alabaster', 'python3-attr', 'python3-babel', 'python3-brotli', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-coloredlogs', 'python3-colormath', 'python3-configargparse', 'python3-connection-pool', 'python3-contourpy', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-defusedxml', 'python3-dnaio', 'python3-docutils', 'python3-dpath', 'python3-fastjsonschema', 'python3-fonttools', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-humanize', 'python3-idna', 'python3-imagesize', 'python3-jinja2', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-jupyter-core', 'python3-kiwisolver', 'python3-linkify-it', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markdown-it', 'python3-markupsafe', 'python3-matplotlib', 'python3-mdurl', 'python3-minimal', 'python3-mpmath', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-numpydoc', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-plac', 'python3-platformdirs', 'python3-plotly', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pyaml-env', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pysam', 'python3-pytz', 'python3-referencing', 'python3-requests', 'python3-retry', 'python3-rich', 'python3-rich-click', 'python3-roman-numerals', 'python3-rpds-py', 'python3-scipy', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-throttler', 'python3-tk', 'python3-toposort', 'python3-traitlets', 'python3-uc-micro', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yte', 'python3-zopfli', 'python3.14', 'python3.14-minimal', 'python3.14-tk', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-cigarillo', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-genomeinfodb', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-seqinfo', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-boot', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-class', 'r-cran-cli', 'r-cran-clock', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-colourpicker', 'r-cran-commonmark', 'r-cran-conquer', 'r-cran-corrplot', 'r-cran-cowplot', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-crosstalk', 'r-cran-curl', 'r-cran-data.table', 'r-cran-deriv', 'r-cran-diagram', 'r-cran-digest', 'r-cran-doby', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-evaluate', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-foreach', 'r-cran-forecast', 'r-cran-formatr', 'r-cran-formula', 'r-cran-fracdiff', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-future', 'r-cran-future.apply', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-ggpubr', 'r-cran-ggrepel', 'r-cran-ggsci', 'r-cran-ggsignif', 'r-cran-globals', 'r-cran-glue', 'r-cran-gower', 'r-cran-gprofiler2', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-hardhat', 'r-cran-highr', 'r-cran-htmltools', 'r-cran-htmlwidgets', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-ipred', 'r-cran-isoband', 'r-cran-iterators', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-kernsmooth', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lava', 'r-cran-lazyeval', 'r-cran-lifecycle', 'r-cran-listenv', 'r-cran-littler', 'r-cran-lme4', 'r-cran-lmtest', 'r-cran-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-microbenchmark', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-modelr', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-otel', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-polynom', 'r-cran-proc', 'r-cran-prodlim', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rbibutils', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-rdpack', 'r-cran-recipes', 'r-cran-reformulas', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rstatix', 'r-cran-s7', 'r-cran-sass', 'r-cran-scales', 'r-cran-shape', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sparsem', 'r-cran-sparsevctrs', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-urca', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zoo', 'r-pkg-team-core-architecture', 'readline-common', 'salmon', 'samtools', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'systemd', 'systemd-sysv', 'trim-galore', 'unicode-data', 'unzip', 'user-session-migration', 'x11-common', 'xdg-utils', 'xkb-data', 'xml-core', 'xz-utils', 'zip'] 7m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', 'pigx-rnaseq'] 7m8.7s DUMP: dpkg: warning: ignoring request to remove pigx-rnaseq which is not installed 7m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', 'pigx-rnaseq'] 7m8.7s INFO: Running scripts post_purge 7m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_purge_exceptions'] 7m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_purge_exceptions'] 7m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_purge_manual_cleanup'] 7m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_purge_manual_cleanup'] 7m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', '--pending'] 7m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--purge', '--pending'] 7m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--remove', '--pending'] 7m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg', '--remove', '--pending'] 7m8.7s INFO: Running scripts post_test 7m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_test_exceptions'] 7m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'tmp/scripts/post_test_exceptions'] 7m8.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 7m9.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 7m9.2s INFO: IGNORED broken symlink: /etc/vconsole.conf (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m9.2s INFO: IGNORED broken symlink: /etc/default/locale (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m9.5s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Journal (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 7m9.5s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Manager (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 7m9.5s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Unit (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 7m9.5s DEBUG: No broken symlinks as far as we can find. 7m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-divert', '--list'] 7m9.5s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 7m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'dpkg-divert', '--list'] 7m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'clean'] 7m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg', 'apt-get', 'clean'] 7m9.5s DEBUG: Recording chroot state 7m10.1s INFO: IGNORED PATH@1: /home (flag Q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/home.conf) 7m10.1s INFO: IGNORED PATH@1: /var/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.1s INFO: IGNORED PATH@1: /var/lib/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.1s INFO: IGNORED PATH@1: /var/lib/systemd/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.1s INFO: IGNORED PATH@1: /var/cache/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.1s INFO: IGNORED PATH@1: /var/log/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.1s INFO: IGNORED PATH@1: /var/spool/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.1s INFO: IGNORED PATH@1: /var/tmp/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/tmp.conf) 7m10.1s INFO: IGNORED PATH@1: /etc/issue (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.1s INFO: IGNORED PATH@1: /etc/nsswitch.conf (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.1s INFO: IGNORED PATH@1: /etc/pam.d/ (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.2s INFO: IGNORED PATH@1: /root/ (flag d- systemd-tmpfiles snippet /usr/lib/tmpfiles.d/provision.conf) 7m10.2s INFO: IGNORED PATH@1: /run/lock/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.2s INFO: IGNORED PATH@1: /tmp/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/tmp.conf) 7m10.2s INFO: IGNORED PATH@1: /srv/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/home.conf) 7m10.2s INFO: IGNORED PATH@2: /home (flag Q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/home.conf) 7m10.2s INFO: IGNORED PATH@2: /var/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.2s INFO: IGNORED PATH@2: /var/lib/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.2s INFO: IGNORED PATH@2: /var/lib/private/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.2s INFO: IGNORED PATH@2: /var/lib/systemd/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.2s INFO: IGNORED PATH@2: /var/cache/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.2s INFO: IGNORED PATH@2: /var/cache/private/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.2s INFO: IGNORED PATH@2: /var/log/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.2s INFO: IGNORED PATH@2: /var/log/private/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.2s INFO: IGNORED PATH@2: /var/spool/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 7m10.2s INFO: IGNORED PATH@2: /var/tmp/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/tmp.conf) 7m10.2s INFO: IGNORED PATH@2: /etc/vconsole.conf (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.2s INFO: IGNORED PATH@2: /etc/issue (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.2s INFO: IGNORED PATH@2: /etc/nsswitch.conf (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.2s INFO: IGNORED PATH@2: /etc/default/locale (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.2s INFO: IGNORED PATH@2: /etc/pam.d/ (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.4s INFO: IGNORED PATH@2: /root/ (flag d- systemd-tmpfiles snippet /usr/lib/tmpfiles.d/provision.conf) 7m10.4s INFO: IGNORED PATH@2: /root/.ssh/ (flag d- systemd-tmpfiles snippet /usr/lib/tmpfiles.d/provision.conf) 7m10.4s INFO: IGNORED PATH@2: /run/log/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/user/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/report.sign/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/dissect-root/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/shutdown/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/machines/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/users/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/sessions/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/seats/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/ask-password/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/netif/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd-network.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/netif/leases/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd-network.conf) 7m10.4s INFO: IGNORED PATH@2: /run/systemd/netif/links/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd-network.conf) 7m10.4s INFO: IGNORED PATH@2: /run/sendsigs.omit.d/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.4s INFO: IGNORED PATH@2: /run/varlink/registry/io.systemd.Journal (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 7m10.4s INFO: IGNORED PATH@2: /run/varlink/registry/io.systemd.Manager (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 7m10.4s INFO: IGNORED PATH@2: /run/varlink/registry/io.systemd.Unit (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 7m10.4s INFO: IGNORED PATH@2: /run/sshd/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-ssh-generator.conf) 7m10.4s INFO: IGNORED PATH@2: /run/lock/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 7m10.4s INFO: IGNORED PATH@2: /tmp/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/tmp.conf) 7m10.4s INFO: IGNORED PATH@2: /tmp/.font-unix/ (flag D systemd-tmpfiles snippet /usr/lib/tmpfiles.d/x11.conf) 7m10.4s INFO: IGNORED PATH@2: /tmp/.XIM-unix/ (flag D systemd-tmpfiles snippet /usr/lib/tmpfiles.d/x11.conf) 7m10.4s INFO: IGNORED PATH@2: /tmp/.ICE-unix/ (flag D systemd-tmpfiles snippet /usr/lib/tmpfiles.d/x11.conf) 7m10.4s INFO: IGNORED PATH@2: /tmp/.X11-unix/ (flag D systemd-tmpfiles snippet /usr/lib/tmpfiles.d/x11.conf) 7m10.4s INFO: IGNORED PATH@2: /srv/ (flag q systemd-tmpfiles snippet /usr/lib/tmpfiles.d/home.conf) 7m14.5s INFO: PASS: Installation and purging test. 7m15.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/shm'] 7m15.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/shm'] 7m15.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/console'] 7m15.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/console'] 7m15.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/ptmx'] 7m15.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/ptmx'] 7m15.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/pts'] 7m15.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/dev/pts'] 7m15.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/proc'] 7m15.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg/proc'] 7m15.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 7m15.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp0x7el_gg'] 7m15.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp0x7el_gg 7m15.4s INFO: PASS: All tests. 7m15.4s INFO: piuparts run ends. ret=0 End: 2026-10-19 15:02:08 GMT