Start: 2022-12-20 05:05:02 GMT [testing] Package: pigx-rnaseq Version: 0.1.0-1.1 Installed-Size: 176 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-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt (>= 0.15+dfsg-2), 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 Recommends: hisat2, rna-star Description: pipeline for checkpointed and distributed RNA-seq analyses Homepage: https://github.com/BIMSBbioinfo/pigx_rnaseq Description-md5: e48b7ff1eb2b189a5bedb2ce0c32035c Section: science Priority: optional Filename: pool/main/p/pigx-rnaseq/pigx-rnaseq_0.1.0-1.1_all.deb Size: 61244 MD5sum: c498fc408d04299178397f05965119df SHA256: 32b5f61115e9fbe559bf2f2dc316127579029f6a4309457906c100956c9ee553 [sid] Package: pigx-rnaseq Version: 0.1.0-1.1 Installed-Size: 176 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-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt (>= 0.15+dfsg-2), 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 Recommends: hisat2, rna-star Description: pipeline for checkpointed and distributed RNA-seq analyses Homepage: https://github.com/BIMSBbioinfo/pigx_rnaseq Description-md5: e48b7ff1eb2b189a5bedb2ce0c32035c Section: science Priority: optional Filename: pool/main/p/pigx-rnaseq/pigx-rnaseq_0.1.0-1.1_all.deb Size: 61244 MD5sum: c498fc408d04299178397f05965119df SHA256: 32b5f61115e9fbe559bf2f2dc316127579029f6a4309457906c100956c9ee553 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt pigx-rnaseq=0.1.0-1.1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt pigx-rnaseq=0.1.0-1.1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-20-amd64 #1 SMP Debian 5.10.158-2 (2022-12-13) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp_yf1hfyn 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp_yf1hfyn 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.0s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/proc'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/proc'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/pts'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/pts'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/ptmx'] 0m2.0s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/ptmx'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/console'] 0m2.1s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/console'] 0m2.1s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/shm'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/shm'] 0m2.1s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m2.1s DEBUG: Created policy-rc.d and chmodded it. 0m2.1s DEBUG: Created resolv.conf. 0m2.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp_yf1hfyn/tmp/scripts/ 0m2.1s INFO: Running scripts post_chroot_unpack 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'update'] 0m4.2s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [164 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8804 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [5950 kB] Fetched 14.9 MB in 1s (10.2 MB/s) Reading package lists... 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'update'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-yf', 'dist-upgrade'] 0m6.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: gcc-12-base libgcc-s1 libperl5.36 libstdc++6 perl perl-base perl-modules-5.36 usr-is-merged usrmerge 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 9577 kB of archives. After this operation, 2048 B of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-6 [4198 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-6 [239 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 perl-base amd64 5.36.0-6 [1608 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-6 [2815 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 gcc-12-base amd64 12.2.0-10 [37.2 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libstdc++6 amd64 12.2.0-10 [613 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libgcc-s1 amd64 12.2.0-10 [49.8 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 usr-is-merged all 35 [4832 B] Get:9 http://deb.debian.org/debian bookworm/main amd64 usrmerge all 35 [12.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9577 kB in 0s (104 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8600 files and directories currently installed.) Preparing to unpack .../libperl5.36_5.36.0-6_amd64.deb ... Unpacking libperl5.36:amd64 (5.36.0-6) over (5.36.0-4) ... Preparing to unpack .../perl_5.36.0-6_amd64.deb ... Unpacking perl (5.36.0-6) over (5.36.0-4) ... Preparing to unpack .../perl-base_5.36.0-6_amd64.deb ... Unpacking perl-base (5.36.0-6) over (5.36.0-4) ... Setting up perl-base (5.36.0-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8601 files and directories currently installed.) Preparing to unpack .../perl-modules-5.36_5.36.0-6_all.deb ... Unpacking perl-modules-5.36 (5.36.0-6) over (5.36.0-4) ... Preparing to unpack .../gcc-12-base_12.2.0-10_amd64.deb ... Unpacking gcc-12-base:amd64 (12.2.0-10) over (12.2.0-9) ... Setting up gcc-12-base:amd64 (12.2.0-10) ... (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 ... 8601 files and directories currently installed.) Preparing to unpack .../libstdc++6_12.2.0-10_amd64.deb ... Unpacking libstdc++6:amd64 (12.2.0-10) over (12.2.0-9) ... Setting up libstdc++6:amd64 (12.2.0-10) ... (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 ... 8601 files and directories currently installed.) Preparing to unpack .../libgcc-s1_12.2.0-10_amd64.deb ... Unpacking libgcc-s1:amd64 (12.2.0-10) over (12.2.0-9) ... Setting up libgcc-s1:amd64 (12.2.0-10) ... (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 ... 8601 files and directories currently installed.) Preparing to unpack .../usr-is-merged_35_all.deb ... W: /etc/unsupported-skip-usrmerge-conversion exists. Unpacking usr-is-merged (35) over (33) ... Setting up usr-is-merged (35) ... (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 ... 8601 files and directories currently installed.) Preparing to unpack .../archives/usrmerge_35_all.deb ... Unpacking usrmerge (35) over (33) ... Setting up perl-modules-5.36 (5.36.0-6) ... Setting up libperl5.36:amd64 (5.36.0-6) ... Setting up perl (5.36.0-6) ... Setting up usrmerge (35) ... W: /etc/unsupported-skip-usrmerge-conversion exists. Processing triggers for libc-bin (2.36-6) ... 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-yf', 'dist-upgrade'] 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.8s DUMP: 3d31a3e4e53d172ee97509c5d88fe789 - 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.8s INFO: Running scripts post_setup 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_dummy_users'] 0m8.3s 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 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_dummy_users'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_forbid_home'] 0m8.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_forbid_home'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.3s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_minimize'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_minimize'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_zz_backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_setup_zz_backports'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.4s DUMP: install ok installed apt apt 2.5.4 install ok installed base-files base-files 12.3 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2-2+b1 install ok installed bsdutils bsdutils 1:2.38.1-4 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-9 install ok installed debconf debconf 1.5.80 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.4 install ok installed diffutils diffutils 1:3.8-1 install ok installed dpkg dpkg 1.21.12 install ok installed e2fsprogs e2fsprogs 1.46.6~rc1-1+b1 install ok installed findutils findutils 4.9.0-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-10 install ok installed gpgv gpgv 2.2.40-1 install ok installed grep grep 3.8-3 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-2 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.4 install ok installed libattr1:amd64 libattr1 1:2.5.1-3 install ok installed libaudit-common libaudit-common 1:3.0.7-1.1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1.1+b2 install ok installed libblkid1:amd64 libblkid1 2.38.1-4 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-6 install ok installed libc6:amd64 libc6 2.36-6 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b2 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.6~rc1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.265 install ok installed libext2fs2:amd64 libext2fs2 1.46.6~rc1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-10 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.8-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.2.9-0.0 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-4 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-5 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-5 install ok installed libpam-runtime libpam-runtime 1.5.2-5 install ok installed libpam0g:amd64 libpam0g 1.5.2-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-3 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-6 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b2 install ok installed libselinux1:amd64 libselinux1 3.4-1+b3 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b3 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-4 install ok installed libss2:amd64 libss2 1.46.6~rc1-1+b1 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-10 install ok installed libsystemd0:amd64 libsystemd0 252.2-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libudev1:amd64 libudev1 252.2-2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-4 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed login login 1:4.13+dfsg1-1 install ok installed logsave logsave 1.46.6~rc1-1+b1 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-4 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 install ok installed passwd passwd 1:4.13+dfsg1-1 install ok installed perl perl 5.36.0-6 install ok installed perl-base perl-base 5.36.0-6 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-6 install ok installed sed sed 4.8-1 install ok installed sysvinit-utils sysvinit-utils 3.05-7 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2022f-1 install ok installed usr-is-merged usr-is-merged 35 install ok installed usrmerge usrmerge 35 install ok installed util-linux util-linux 2.38.1-4 install ok installed util-linux-extra util-linux-extra 2.38.1-4 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.4s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m8.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 0m8.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 0m8.8s INFO: Running scripts is_testable 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/is_testable_uninstallable'] 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/is_testable_uninstallable'] 0m8.8s INFO: Running scripts pre_test 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_test_exceptions'] 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_test_exceptions'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_test_root_password'] 0m8.9s DUMP: New password: Retype new password: passwd: password updated successfully 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_test_root_password'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'show', '--no-all-versions', 'pigx-rnaseq'] 0m9.2s DUMP: Package: pigx-rnaseq Version: 0.1.0-1.1 Installed-Size: 176 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-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt (>= 0.15+dfsg-2), 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 Recommends: hisat2, rna-star 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 Section: science Priority: optional Filename: pool/main/p/pigx-rnaseq/pigx-rnaseq_0.1.0-1.1_all.deb Size: 61244 MD5sum: c498fc408d04299178397f05965119df SHA256: 32b5f61115e9fbe559bf2f2dc316127579029f6a4309457906c100956c9ee553 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'show', '--no-all-versions', 'pigx-rnaseq'] 0m9.2s INFO: apt-cache knows about the following packages: pigx-rnaseq 0m9.2s INFO: Running scripts pre_install 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_database-server'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_database-server'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_exceptions'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_exceptions'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_extras'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_extras'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy'] 0m9.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release o=Debian,a=testing,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy', 'pigx-rnaseq'] 0m9.3s DUMP: pigx-rnaseq: Installed: (none) Candidate: 0.1.0-1.1 Version table: 0.1.0-1.1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy', 'pigx-rnaseq'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-y', 'install', 'pigx-rnaseq'] 3m8.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: adwaita-icon-theme at-spi2-common binutils binutils-common binutils-x86-64-linux-gnu blt ca-certificates ca-certificates-java coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 cpp cpp-12 cutadapt default-jre default-jre-headless docutils-common fastp fastqc fontconfig fontconfig-config fonts-dejavu-core fonts-font-awesome fonts-glyphicons-halflings fonts-lyx fonts-mathjax g++ g++-12 gcc gcc-12 gir1.2-glib-2.0 git git-man gtk-update-icon-cache hicolor-icon-theme hisat2 java-common javascript-common libaec0 libapache-pom-java libargs4j-java libasan8 libasound2 libasound2-data libatk1.0-0 libatomic1 libavahi-client3 libavahi-common-data libavahi-common3 libbigwig0 libbinutils libblas3 libboost-dev libboost-filesystem1.74.0 libboost-iostreams1.74.0 libboost-program-options1.74.0 libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcrypt-dev libctf-nobfd0 libctf0 libcups2 libcurl3-gnutls libcurl4 libdatrie1 libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 liberror-perl libexpat1 libexpat1-dev libfindbin-libs-perl libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgirepository-1.0-1 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhdf5-103-1 libhts3 libhtscodecs2 libhtsjdk-java libhwloc15 libice6 libicu72 libimagequant0 libisal2 libisl23 libitm1 libjansson4 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 libjs-underscore libjson-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm15 liblsan0 liblua5.3-0 libmjson-java libmpc3 libmpdec3 libmpfr6 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnlopt0 libnsl-dev libnsl2 libnspr4 libnss3 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcsclite1 libpixman-1-0 libpng16-16 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.11 libpython3.11-minimal libpython3.11-stdlib libqhull-r8.0 libquadmath0 libraqm0 libreadline8 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsis-base-java libsis-base-jni libsis-jhdf5-java libsis-jhdf5-jni libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsodium23 libsqlite3-0 libssh2-1 libssl3 libstaden-read14 libstdc++-12-dev libsz2 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-common libtirpc-dev libtirpc3 libtk8.6 libtsan2 libubsan1 libuv1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxshmfence1 libxsimd-dev libxslt1.1 libxss1 libxt6 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 linux-libc-dev littler media-types megadepth multiqc node-bootstrap-sass node-html5shiv node-normalize.css openjdk-17-jre openjdk-17-jre-headless openssl pandoc pandoc-data pigz python-babel-localedata python-matplotlib-data python3 python3-adal python3-aiohttp python3-aiosignal python3-alabaster python3-all python3-all-dev python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-babel python3-bcrypt python3-beniget python3-blinker python3-boto3 python3-botocore python3-brotli python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-click python3-colorama python3-coloredlogs python3-colormath python3-commonmark python3-configargparse python3-connection-pool python3-cryptography python3-cutadapt python3-cycler python3-dateutil python3-datrie python3-decorator python3-deeptools python3-deeptoolsintervals python3-dev python3-distutils python3-dnaio python3-docutils python3-fastjsonschema python3-fonttools python3-frozenlist python3-fs python3-future python3-gast python3-gi python3-git python3-gitdb python3-htseq python3-humanfriendly python3-idna python3-imagesize python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-lzstring python3-markdown python3-markupsafe python3-marshmallow python3-matplotlib python3-minimal python3-mpmath python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-networkx python3-numpy python3-numpydoc python3-oauthlib python3-packaging python3-paramiko python3-pbr python3-pil python3-pil.imagetk python3-pkg-resources python3-plotly python3-ply python3-portalocker python3-psutil python3-pulp python3-py2bit python3-pybigwig python3-pygments python3-pyparsing python3-pyrsistent python3-pysam python3-pythran python3-ratelimiter python3-requests python3-requests-oauthlib python3-rich python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-scipy python3-setuptools python3-simplejson python3-six python3-smart-open python3-smmap python3-snowballstemmer python3-spectra python3-sphinx python3-stopit python3-strictyaml python3-sympy python3-tabulate python3-tenacity python3-tk python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-tz python3-uamqp python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wrapt python3-xopen python3-yaml python3-yarl python3.10 python3.10-dev python3.10-minimal python3.11 python3.11-minimal r-base-core r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-delayedarray r-bioc-deseq2 r-bioc-geneplotter r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-tximport r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-boot r-cran-brio r-cran-broom r-cran-bslib r-cran-cachem r-cran-callr r-cran-car r-cran-cardata r-cran-caret r-cran-cellranger r-cran-class r-cran-cli r-cran-clipr 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-dbi r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-forcats r-cran-foreach r-cran-foreign r-cran-formatr 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-haven r-cran-highr r-cran-hms 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-locfit r-cran-lubridate r-cran-magrittr r-cran-maptools r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-miniui r-cran-minqa r-cran-modelmetrics r-cran-munsell r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-openxlsx r-cran-parallelly r-cran-pbkrtest r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-plotly r-cran-plyr r-cran-png r-cran-polynom r-cran-praise r-cran-prettyunits r-cran-proc r-cran-processx r-cran-prodlim r-cran-progress r-cran-progressr r-cran-promises r-cran-proxy r-cran-ps r-cran-purrr r-cran-quantreg r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcurl r-cran-readr r-cran-readxl r-cran-recipes r-cran-rematch r-cran-rematch2 r-cran-reshape2 r-cran-restfulr r-cran-rio r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rprojroot r-cran-rsqlite r-cran-rstatix r-cran-sass r-cran-scales r-cran-shiny r-cran-shinyjs r-cran-snow r-cran-sourcetools r-cran-sp r-cran-sparsem r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tzdb r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-vroom r-cran-waldo r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml r-cran-zip readline-common rpcsvc-proto salmon samtools sensible-utils sgml-base shared-mime-info snakemake sphinx-common tk8.6-blt2.5 trim-galore ucf unicode-data unzip x11-common xdg-utils xml-core zip zlib1g-dev Suggested packages: binutils-doc blt-demo cpp-doc gcc-12-locales cpp-12-doc g++-multilib g++-12-multilib gcc-12-doc gcc-multilib make manpages-dev autoconf automake libtool flex bison gdb gcc-doc gcc-12-multilib gettext-base git-daemon-run | git-daemon-sysvinit git-doc git-email git-gui gitk gitweb git-cvs git-mediawiki git-svn apache2 | lighttpd | httpd libasound2-plugins alsa-utils libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev glibc-doc libasm-java libxz-java libcommons-io-java-doc libcommons-lang3-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java cups-common low-memory-monitor krb5-doc krb5-user gvfs picard-tools libhwloc-contrib-plugins libjs-jquery-ui-docs fonts-mathjax-extras fonts-stix libjs-mathjax-doc liblcms2-utils pcscd rhino lm-sensors libstdc++-12-doc tcl8.6 tk8.6 libxsimd-doc r-bioc-megadepth nodejs libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic texlive-latex-recommended texlive-xetex texlive-luatex pandoc-citeproc texlive-latex-extra context wkhtmltopdf librsvg2-bin groff ghc php python ruby libjs-katex citation-style-language-styles python3-doc python3-venv python-attr-doc python-azure-doc python-blinker-doc python-cryptography-doc python3-cryptography-vectors python-cycler-doc python-python-deeptoolsintervals-doc docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french texlive-latex-base python-fastjsonschema-doc python-future-doc python-git-doc python-jinja2-doc python-jsonschema-doc python3-pip python3-crypto python-lxml-doc python-markdown-doc cm-super-minimal dvipng ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi-cairo python3-gobject python3-pyqt5 python3-sip python3-tornado texlive-extra-utils python-mpmath-doc python3-gmpy2 python-nacl-doc python-networkx-doc gfortran python-numpy-doc python3-pytest python3-gssapi python-pil-doc python3-pandas python3-ipykernel python-ply-doc python-psutil-doc python-pygments-doc ttf-bitstream-vera python-pyparsing-doc python3-openssl python3-socks python-requests-doc python-scipy-doc python-setuptools-doc python3-nose python3-stemmer fonts-freefont-otf imagemagick-6.q16 latexmk python3-sphinx-rtd-theme sphinx-doc tex-gyre texlive-fonts-recommended texlive-plain-generic texlive-fonts-extra python-sympy-doc python-tenacity-doc tix python3-tk-dbg python3.10-venv python3.10-doc binfmt-support python3.11-venv python3.11-doc elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-bioc-genefilter r-bioc-go.db r-bioc-org.hs.eg.db r-cran-runit r-bioc-graph r-bioc-biocstyle r-bioc-all r-bioc-affy r-cran-batchjobs r-cran-bbmisc r-cran-doparallel r-cran-rmpi r-bioc-variantannotation r-bioc-shortread r-cran-batchtools r-bioc-bsgenome r-bioc-genomicfeatures r-bioc-hdf5array r-cran-lobstr r-bioc-delayedmatrixstats r-bioc-tximeta r-bioc-tximportdata r-cran-pbapply r-bioc-glmgampoi r-cran-biocmanager r-bioc-edger r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq r-cran-markdown r-bioc-sparsematrixstats r-bioc-limma r-bioc-rhdf5 r-cran-roxygen2 r-cran-ff r-cran-covr r-cran-aer r-cran-bbmle r-cran-cluster r-cran-cmprsk r-cran-coda r-cran-emmeans r-cran-epir r-cran-gam r-cran-gee r-cran-geepack r-cran-glmnet r-cran-gmm r-cran-hmisc r-cran-irlba r-cran-interp r-cran-ks r-cran-lavaan r-cran-leaps r-cran-lmtest r-cran-lsmeans r-cran-maps r-cran-mclust r-cran-metafor r-cran-modeldata r-cran-multcomp r-cran-network r-cran-ordinal r-cran-plm r-cran-psych r-cran-robust r-cran-robustbase r-cran-rsample r-cran-sandwich r-cran-spdep r-cran-spatialreg r-cran-spelling r-cran-survey r-cran-systemfit r-cran-tseries r-cran-zoo r-cran-bradleyterry2 r-cran-ellipse r-cran-mlbench r-cran-party r-cran-pls r-cran-randomforest r-cran-rann r-cran-rstudioapi r-cran-whoami r-cran-kernlab r-cran-mvtnorm r-cran-vcd r-cran-jpeg r-cran-viridis r-cran-xml2 r-cran-seriation r-cran-cairo r-cran-gridgraphics r-cran-magick r-cran-patchwork r-cran-ragg r-cran-venndiagram r-cran-bench r-cran-r.utils r-cran-xts r-cran-nanotime r-cran-rmysql r-cran-testit r-cran-unitizer r-cran-r.rsp r-cran-vdiffr r-cran-tinytest r-cran-profvis r-cran-th.data r-cran-sf r-cran-rgl r-cran-webshot r-cran-reticulate r-cran-gridsvg r-cran-fields r-cran-bookdown r-cran-igraph r-cran-lavasearch2 r-cran-optimx r-cran-polycor r-cran-lintr r-cran-tidyverse r-cran-getopt r-cran-rgeos r-cran-spatstat.geom r-cran-raster r-cran-polyclip r-cran-plotrix r-cran-spatstat.linnet r-cran-spatstat.utils r-cran-spatstat r-cran-r.devices r-cran-formattable r-cran-palmerpenguins r-cran-units r-cran-mathjaxr r-cran-remotes r-cran-ggally r-cran-devtools r-cran-dendextend r-cran-irdisplay r-cran-itertools r-cran-pbmcapply r-cran-furrr r-cran-pingr r-cran-inline r-cran-splines2 r-cran-usethis r-cran-downlit r-cran-gert r-cran-gh r-cran-rvest r-cran-coin r-cran-dichromat r-cran-rlecuyer r-cran-rgdal r-cran-gstat r-cran-deldir r-cran-pkgbuild r-cran-pkgdown r-cran-zeallot readline-doc cwltool sgml-base-doc snakemake-doc debhelper Recommended packages: librsvg2-common patch less ssh-client python3-hisat2 bcftools alsa-ucm-conf alsa-topology-conf curl manpages manpages-dev libc-devtools dbus libgdk-pixbuf2.0-bin libglib2.0-data xdg-user-dirs libgail-common libgtk2.0-bin libhwloc-plugins node-jquery libjson-xs-perl krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules node-clipboard libjs-filesaver texlive-xetex libatk-wrapper-java-jni fonts-dejavu-extra rna-star python3-json-pointer python3-rfc3987 python3-uritemplate python3-webcolors python3-bs4 python3-html5lib python3-gdal python3-pydot python3-pygraphviz python3-invoke python3-olefile make isympy-common r-recommended r-base-dev r-doc-html r-cran-thematic r-cran-cliapp r-cran-mockery r-cran-earth r-cran-mda r-cran-mlmetrics r-cran-fastica r-cran-kernlab r-cran-themis r-cran-vdiffr r-cran-decor r-cran-webutils r-cran-covr r-cran-gh r-cran-bench r-cran-dbplyr r-cran-lobstr r-cran-rmysql r-cran-rpostgresql r-cran-rsvg r-cran-testit r-cran-ragg r-cran-hexbin r-cran-hmisc r-cran-interp r-cran-mapproj r-cran-maps r-cran-multcomp r-cran-sf r-cran-svglite r-cran-xml2 r-cran-devtools r-cran-ggbeeswarm r-cran-modeldata r-cran-roxygen2 r-cran-usethis r-cran-markdown r-cran-mlbench r-cran-tikzdevice node-highlight.js r-cran-mets r-cran-runit r-cran-sodium r-cran-pkgbuild r-cran-mockr r-cran-ggthemes r-cran-rsclient r-cran-rversions r-cran-domc r-cran-logcondens r-cran-cba r-cran-ddalpha r-cran-dimred r-cran-pls r-cran-rcpproll r-cran-rsample r-cran-rspectra r-cran-igraph r-cran-rann r-cran-tufte r-cran-dygraphs r-cran-rsconnect r-cran-dbitest r-cran-setrng r-cran-formattable cwltool imagemagick python3-yappi python3-biopython python3-dropbox python3-flask python3-ftputil python3-irodsclient python3-kubernetes 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 blt ca-certificates ca-certificates-java coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 cpp cpp-12 cutadapt default-jre default-jre-headless docutils-common fastp fastqc fontconfig fontconfig-config fonts-dejavu-core fonts-font-awesome fonts-glyphicons-halflings fonts-lyx fonts-mathjax g++ g++-12 gcc gcc-12 gir1.2-glib-2.0 git git-man gtk-update-icon-cache hicolor-icon-theme hisat2 java-common javascript-common libaec0 libapache-pom-java libargs4j-java libasan8 libasound2 libasound2-data libatk1.0-0 libatomic1 libavahi-client3 libavahi-common-data libavahi-common3 libbigwig0 libbinutils libblas3 libboost-dev libboost-filesystem1.74.0 libboost-iostreams1.74.0 libboost-program-options1.74.0 libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcrypt-dev libctf-nobfd0 libctf0 libcups2 libcurl3-gnutls libcurl4 libdatrie1 libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 liberror-perl libexpat1 libexpat1-dev libfindbin-libs-perl libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgirepository-1.0-1 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhdf5-103-1 libhts3 libhtscodecs2 libhtsjdk-java libhwloc15 libice6 libicu72 libimagequant0 libisal2 libisl23 libitm1 libjansson4 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 libjs-underscore libjson-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm15 liblsan0 liblua5.3-0 libmjson-java libmpc3 libmpdec3 libmpfr6 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnlopt0 libnsl-dev libnsl2 libnspr4 libnss3 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcsclite1 libpixman-1-0 libpng16-16 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.11 libpython3.11-minimal libpython3.11-stdlib libqhull-r8.0 libquadmath0 libraqm0 libreadline8 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsis-base-java libsis-base-jni libsis-jhdf5-java libsis-jhdf5-jni libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsodium23 libsqlite3-0 libssh2-1 libssl3 libstaden-read14 libstdc++-12-dev libsz2 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-common libtirpc-dev libtirpc3 libtk8.6 libtsan2 libubsan1 libuv1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxshmfence1 libxsimd-dev libxslt1.1 libxss1 libxt6 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 linux-libc-dev littler media-types megadepth multiqc node-bootstrap-sass node-html5shiv node-normalize.css openjdk-17-jre openjdk-17-jre-headless openssl pandoc pandoc-data pigx-rnaseq pigz python-babel-localedata python-matplotlib-data python3 python3-adal python3-aiohttp python3-aiosignal python3-alabaster python3-all python3-all-dev python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-babel python3-bcrypt python3-beniget python3-blinker python3-boto3 python3-botocore python3-brotli python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-click python3-colorama python3-coloredlogs python3-colormath python3-commonmark python3-configargparse python3-connection-pool python3-cryptography python3-cutadapt python3-cycler python3-dateutil python3-datrie python3-decorator python3-deeptools python3-deeptoolsintervals python3-dev python3-distutils python3-dnaio python3-docutils python3-fastjsonschema python3-fonttools python3-frozenlist python3-fs python3-future python3-gast python3-gi python3-git python3-gitdb python3-htseq python3-humanfriendly python3-idna python3-imagesize python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-lzstring python3-markdown python3-markupsafe python3-marshmallow python3-matplotlib python3-minimal python3-mpmath python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-networkx python3-numpy python3-numpydoc python3-oauthlib python3-packaging python3-paramiko python3-pbr python3-pil python3-pil.imagetk python3-pkg-resources python3-plotly python3-ply python3-portalocker python3-psutil python3-pulp python3-py2bit python3-pybigwig python3-pygments python3-pyparsing python3-pyrsistent python3-pysam python3-pythran python3-ratelimiter python3-requests python3-requests-oauthlib python3-rich python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-scipy python3-setuptools python3-simplejson python3-six python3-smart-open python3-smmap python3-snowballstemmer python3-spectra python3-sphinx python3-stopit python3-strictyaml python3-sympy python3-tabulate python3-tenacity python3-tk python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-tz python3-uamqp python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wrapt python3-xopen python3-yaml python3-yarl python3.10 python3.10-dev python3.10-minimal python3.11 python3.11-minimal r-base-core r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-delayedarray r-bioc-deseq2 r-bioc-geneplotter r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-tximport r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-boot r-cran-brio r-cran-broom r-cran-bslib r-cran-cachem r-cran-callr r-cran-car r-cran-cardata r-cran-caret r-cran-cellranger r-cran-class r-cran-cli r-cran-clipr 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-dbi r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-forcats r-cran-foreach r-cran-foreign r-cran-formatr 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-haven r-cran-highr r-cran-hms 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-locfit r-cran-lubridate r-cran-magrittr r-cran-maptools r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-miniui r-cran-minqa r-cran-modelmetrics r-cran-munsell r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-openxlsx r-cran-parallelly r-cran-pbkrtest r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-plotly r-cran-plyr r-cran-png r-cran-polynom r-cran-praise r-cran-prettyunits r-cran-proc r-cran-processx r-cran-prodlim r-cran-progress r-cran-progressr r-cran-promises r-cran-proxy r-cran-ps r-cran-purrr r-cran-quantreg r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcurl r-cran-readr r-cran-readxl r-cran-recipes r-cran-rematch r-cran-rematch2 r-cran-reshape2 r-cran-restfulr r-cran-rio r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rprojroot r-cran-rsqlite r-cran-rstatix r-cran-sass r-cran-scales r-cran-shiny r-cran-shinyjs r-cran-snow r-cran-sourcetools r-cran-sp r-cran-sparsem r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tzdb r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-vroom r-cran-waldo r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml r-cran-zip readline-common rpcsvc-proto salmon samtools sensible-utils sgml-base shared-mime-info snakemake sphinx-common tk8.6-blt2.5 trim-galore ucf unicode-data unzip x11-common xdg-utils xml-core zip zlib1g-dev 0 upgraded, 680 newly installed, 0 to remove and 0 not upgraded. Need to get 636 MB of archives. After this operation, 3046 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 pigz amd64 2.6-1 [64.0 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.7-1 [2008 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-minimal amd64 3.10.9-1 [784 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 python3.10-minimal amd64 3.10.9-1 [1951 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.10.6-1 [38.7 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 media-types all 8.0.0 [33.4 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libmpdec3 amd64 2.5.1-2 [87.8 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.3+20220423-2 [133 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-1 [32.2 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-1 [78.6 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-1 [15.7 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-1 [331 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-1 [134 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.2 [68.5 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.2 [165 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.0-1 [838 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-stdlib amd64 3.10.9-1 [1684 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 python3.10 amd64 3.10.9-1 [509 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.10.6-1 [21.7 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.10.6-1 [38.2 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.1-1 [812 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.1-1 [2063 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17 [21.5 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.7-1 [1400 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20211016 [156 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043 [74.0 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-1 [306 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.2-1 [1394 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.1+b2 [687 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 shared-mime-info amd64 2.2-1 [729 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.2-1+b1 [169 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.2-2+b2 [280 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libtiff5 amd64 4.4.0-6 [302 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.10+dfsg-1 [138 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 gtk-update-icon-cache amd64 3.24.35-3 [42.2 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 adwaita-icon-theme all 43-1 [5124 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 at-spi2-common all 2.46.0-4 [161 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 binutils-common amd64 2.39.50.20221208-5 [2321 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libbinutils amd64 2.39.50.20221208-5 [595 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 libctf-nobfd0 amd64 2.39.50.20221208-5 [153 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libctf0 amd64 2.39.50.20221208-5 [89.8 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libgprofng0 amd64 2.39.50.20221208-5 [812 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libjansson4 amd64 2.14-2 [40.8 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 binutils-x86-64-linux-gnu amd64 2.39.50.20221208-5 [2191 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 binutils amd64 2.39.50.20221208-5 [64.3 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libtcl8.6 amd64 8.6.13+dfsg-1 [1035 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b5 [279 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-3 [420 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.13.1-4.5 [281 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.13.1-4.5 [351 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-1 [117 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.1-2 [308 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.1-2 [772 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 libtk8.6 amd64 8.6.13-1 [780 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4.1 [593 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 blt amd64 2.5.3+dfsg-4.1 [14.9 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20220719 [16.1 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.10.1-2 [156 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-10 [145 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-10 [793 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libopenblas0-pthread amd64 0.3.21+ds-3 [6708 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.10.1-2 [2202 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 coinor-libcoinutils3v5 amd64 2.11.4+repack1-2 [440 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 coinor-libosi1v5 amd64 0.108.6+repack1-2 [276 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 coinor-libclp1 amd64 1.17.6-3 [843 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 coinor-libcgl1 amd64 0.60.3+repack1-4 [409 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 coinor-libcbc3 amd64 2.10.8+ds1-1 [715 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 coinor-cbc amd64 2.10.8+ds1-1 [14.8 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libisl23 amd64 0.25-1 [690 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libmpfr6 amd64 4.1.0-3 [2012 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 libmpc3 amd64 1.2.1-2 [44.6 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 cpp-12 amd64 12.2.0-10 [9770 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 cpp amd64 4:12.2.0-1 [20.0 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 65.5.0-1 [278 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 python3-xopen all 1.2.1-4 [13.4 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 python3-dnaio amd64 0.9.1-1+b1 [69.2 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 python3-cutadapt amd64 4.1-1+b1 [173 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 cutadapt all 4.1-1 [23.9 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.73 [6268 B] Get:100 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-6+b1 [106 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-6+b1 [41.1 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.4-1 [235 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-6+b1 [44.9 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-1+b2 [243 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.13.1-1+b1 [153 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.35-1 [113 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.85-1 [1333 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.8-1 [20.5 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.8-1 [362 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 5.2.0-2+b1 [1886 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.9-1 [60.8 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre-headless amd64 17.0.5+8-2 [43.6 MB] Get:114 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.17-73 [2812 B] Get:115 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-common all 2.24.33-2 [2700 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 libatk1.0-0 amd64 2.46.0-4 [49.5 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.13.1-4.5 [417 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.10+ds-1 [239 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.10+ds-1 [75.4 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.10+ds-1 [62.4 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libxcomposite1 amd64 1:0.4.5-1 [16.6 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libxfixes3 amd64 1:6.0.0-2 [22.7 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libxcursor1 amd64 1:1.2.1-1 [40.9 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libxdamage1 amd64 1:1.1.5-2 [15.7 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libxi6 amd64 2:1.8-1+b1 [84.2 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libxinerama1 amd64 2:1.1.4-3 [17.8 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libxrandr2 amd64 2:1.5.2-2+b1 [39.2 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-0 amd64 2.24.33-2 [1855 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 libglvnd0 amd64 1.5.0-1 [49.2 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 libdrm-common all 2.4.114-1 [7112 B] Get:139 http://deb.debian.org/debian bookworm/main amd64 libdrm2 amd64 2.4.114-1 [37.2 kB] Get:140 http://deb.debian.org/debian bookworm/main amd64 libglapi-mesa amd64 22.2.4-1 [34.5 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libx11-xcb1 amd64 2:1.8.1-2 [203 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri2-0 amd64 1.15-1 [107 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri3-0 amd64 1.15-1 [107 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libxcb-glx0 amd64 1.15-1 [122 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 libxcb-present0 amd64 1.15-1 [105 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libxcb-sync1 amd64 1.15-1 [109 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 libxcb-xfixes0 amd64 1.15-1 [109 kB] Get:148 http://deb.debian.org/debian bookworm/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get:149 http://deb.debian.org/debian bookworm/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 libdrm-amdgpu1 amd64 2.4.114-1 [20.6 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 libdrm-nouveau2 amd64 2.4.114-1 [18.8 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 libdrm-radeon1 amd64 2.4.114-1 [21.6 kB] Get:153 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-1 [172 kB] Get:154 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 libz3-4 amd64 4.8.12-3 [7216 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 libllvm15 amd64 1:15.0.6-3 [23.1 MB] Get:157 http://deb.debian.org/debian bookworm/main amd64 libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 libsensors5 amd64 1:3.6.0-7.1 [34.2 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 libgl1-mesa-dri amd64 22.2.4-1 [7067 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 libglx-mesa0 amd64 22.2.4-1 [147 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 libglx0 amd64 1.5.0-1 [35.7 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 libgl1 amd64 1.5.0-1 [89.4 kB] Get:163 http://deb.debian.org/debian bookworm/main amd64 libgif7 amd64 5.2.1-2.5 [46.9 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 libxtst6 amd64 2:1.2.3-1.1 [28.0 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre amd64 17.0.5+8-2 [167 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 default-jre amd64 2:1.17-73 [1060 B] Get:167 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 docutils-common all 0.17.1+dfsg-3 [113 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 libisal2 amd64 2.30.0-5 [107 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 fastp amd64 0.23.2+dfsg-2+b1 [203 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 libcommons-math3-java all 3.6.1-3 [2018 kB] Get:172 http://deb.debian.org/debian bookworm/main amd64 libjbzip2-java all 0.9.1-8 [42.7 kB] Get:173 http://deb.debian.org/debian bookworm/main amd64 libapache-pom-java all 25-2 [5260 B] Get:174 http://deb.debian.org/debian bookworm/main amd64 libcommons-parent-java all 43-1 [10.8 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 libcommons-compress-java all 1.22-1 [615 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 libcommons-logging-java all 1.2-3 [62.4 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 libmjson-java all 1.4.0-3 [60.4 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 libngs-sdk2 amd64 2.11.2-4 [59.3 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 libngs-sdk-dev amd64 2.11.2-4 [103 kB] Get:181 http://deb.debian.org/debian bookworm/main amd64 libngs-java amd64 2.11.2-4 [80.8 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 librhino-java all 1.7.7.2-3 [1200 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 libsnappy1v5 amd64 1.1.9-2 [27.4 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 libsnappy-jni amd64 1.1.8.3-1 [7152 B] Get:185 http://deb.debian.org/debian bookworm/main amd64 libsnappy-java all 1.1.8.3-1 [98.9 kB] Get:186 http://deb.debian.org/debian bookworm/main amd64 libhtsjdk-java all 3.0.2+dfsg-1 [1813 kB] Get:187 http://deb.debian.org/debian bookworm/main amd64 libfindbin-libs-perl all 3.0.1-2 [29.1 kB] Get:188 http://deb.debian.org/debian bookworm/main amd64 libargs4j-java all 2.33-2 [138 kB] Get:189 http://deb.debian.org/debian bookworm/main amd64 libcommons-io-java all 2.11.0-2 [319 kB] Get:190 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang3-java all 3.12.0-2 [561 kB] Get:191 http://deb.debian.org/debian bookworm/main amd64 libsis-base-jni amd64 18.09~pre1+git20180928.45fbd31+dfsg-3 [12.5 kB] Get:192 http://deb.debian.org/debian bookworm/main amd64 libsis-base-java all 18.09~pre1+git20180928.45fbd31+dfsg-3 [97.8 kB] Get:193 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:194 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:195 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-2+b1 [183 kB] Get:196 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.51.0-1 [71.5 kB] Get:197 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:198 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:199 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:200 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.86.0-2 [364 kB] Get:201 http://deb.debian.org/debian bookworm/main amd64 libaec0 amd64 1.0.6-1+b1 [21.1 kB] Get:202 http://deb.debian.org/debian bookworm/main amd64 libsz2 amd64 1.0.6-1+b1 [7804 B] Get:203 http://deb.debian.org/debian bookworm/main amd64 libhdf5-103-1 amd64 1.10.8+repack-4 [1238 kB] Get:204 http://deb.debian.org/debian bookworm/main amd64 libsis-jhdf5-jni amd64 19.04.1+dfsg-2 [96.0 kB] Get:205 http://deb.debian.org/debian bookworm/main amd64 libsis-jhdf5-java all 19.04.1+dfsg-2 [1491 kB] Get:206 http://deb.debian.org/debian bookworm/main amd64 fastqc all 0.11.9+dfsg-6 [390 kB] Get:207 http://deb.debian.org/debian bookworm/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get:208 http://deb.debian.org/debian bookworm/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-2 [164 kB] Get:209 http://deb.debian.org/debian bookworm/main amd64 fonts-lyx all 2.3.6.1-1 [206 kB] Get:210 http://deb.debian.org/debian bookworm/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get:211 http://deb.debian.org/debian bookworm/main amd64 libcc1-0 amd64 12.2.0-10 [41.7 kB] Get:212 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-10 [116 kB] Get:213 http://deb.debian.org/debian bookworm/main amd64 libitm1 amd64 12.2.0-10 [26.1 kB] Get:214 http://deb.debian.org/debian bookworm/main amd64 libatomic1 amd64 12.2.0-10 [9328 B] Get:215 http://deb.debian.org/debian bookworm/main amd64 libasan8 amd64 12.2.0-10 [2194 kB] Get:216 http://deb.debian.org/debian bookworm/main amd64 liblsan0 amd64 12.2.0-10 [969 kB] Get:217 http://deb.debian.org/debian bookworm/main amd64 libtsan2 amd64 12.2.0-10 [2197 kB] Get:218 http://deb.debian.org/debian bookworm/main amd64 libubsan1 amd64 12.2.0-10 [883 kB] Get:219 http://deb.debian.org/debian bookworm/main amd64 libgcc-12-dev amd64 12.2.0-10 [2437 kB] Get:220 http://deb.debian.org/debian bookworm/main amd64 gcc-12 amd64 12.2.0-10 [19.3 MB] Get:221 http://deb.debian.org/debian bookworm/main amd64 gcc amd64 4:12.2.0-1 [5192 B] Get:222 http://deb.debian.org/debian bookworm/main amd64 libc-dev-bin amd64 2.36-6 [43.1 kB] Get:223 http://deb.debian.org/debian bookworm/main amd64 linux-libc-dev amd64 6.0.12-1 [1695 kB] Get:224 http://deb.debian.org/debian bookworm/main amd64 libcrypt-dev amd64 1:4.4.33-1 [118 kB] Get:225 http://deb.debian.org/debian bookworm/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Get:226 http://deb.debian.org/debian bookworm/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:227 http://deb.debian.org/debian bookworm/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:228 http://deb.debian.org/debian bookworm/main amd64 libc6-dev amd64 2.36-6 [1897 kB] Get:229 http://deb.debian.org/debian bookworm/main amd64 libstdc++-12-dev amd64 12.2.0-10 [2047 kB] Get:230 http://deb.debian.org/debian bookworm/main amd64 g++-12 amd64 12.2.0-10 [10.7 MB] Get:231 http://deb.debian.org/debian bookworm/main amd64 g++ amd64 4:12.2.0-1 [1636 B] Get:232 http://deb.debian.org/debian bookworm/main amd64 libgirepository-1.0-1 amd64 1.74.0-2 [112 kB] Get:233 http://deb.debian.org/debian bookworm/main amd64 gir1.2-glib-2.0 amd64 1.74.0-2 [170 kB] Get:234 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.86.0-2 [359 kB] Get:235 http://deb.debian.org/debian bookworm/main amd64 liberror-perl all 0.17029-2 [29.0 kB] Get:236 http://deb.debian.org/debian bookworm/main amd64 git-man all 1:2.35.1-1 [1916 kB] Get:237 http://deb.debian.org/debian bookworm/main amd64 git amd64 1:2.35.1-1 [5796 kB] Get:238 http://deb.debian.org/debian bookworm/main amd64 hisat2 amd64 2.2.1-4 [3657 kB] Get:239 http://deb.debian.org/debian bookworm/main amd64 javascript-common all 11+nmu1 [6260 B] Get:240 http://deb.debian.org/debian bookworm/main amd64 libbigwig0 amd64 0.4.7+dfsg-3 [27.9 kB] Get:241 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0-17+b2 [9511 kB] Get:242 http://deb.debian.org/debian bookworm/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get:243 http://deb.debian.org/debian bookworm/main amd64 libboost-filesystem1.74.0 amd64 1.74.0-17+b2 [258 kB] Get:244 http://deb.debian.org/debian bookworm/main amd64 libboost-iostreams1.74.0 amd64 1.74.0-17+b2 [240 kB] Get:245 http://deb.debian.org/debian bookworm/main amd64 libboost-program-options1.74.0 amd64 1.74.0-17+b2 [328 kB] Get:246 http://deb.debian.org/debian bookworm/main amd64 libexpat1-dev amd64 2.5.0-1 [150 kB] Get:247 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.3.0-4 [87.5 kB] Get:248 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.16+ds-3 [430 kB] Get:249 http://deb.debian.org/debian bookworm/main amd64 libhwloc15 amd64 2.9.0-1 [154 kB] Get:250 http://deb.debian.org/debian bookworm/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:251 http://deb.debian.org/debian bookworm/main amd64 libimagequant0 amd64 2.17.0-1 [32.5 kB] Get:252 http://deb.debian.org/debian bookworm/main amd64 libjemalloc2 amd64 5.2.1-5 [251 kB] Get:253 http://deb.debian.org/debian bookworm/main amd64 libjs-bootstrap all 3.4.1+dfsg-2 [173 kB] Get:254 http://deb.debian.org/debian bookworm/main amd64 libjs-popper.js all 1.16.1+ds-6 [52.4 kB] Get:255 http://deb.debian.org/debian bookworm/main amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [517 kB] Get:256 http://deb.debian.org/debian bookworm/main amd64 libjs-d3 all 3.5.17-4 [132 kB] Get:257 http://deb.debian.org/debian bookworm/main amd64 libjs-es5-shim all 4.6.7-2 [47.4 kB] Get:258 http://deb.debian.org/debian bookworm/main amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [397 kB] Get:259 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get:260 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [144 kB] Get:261 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-datatables-extensions all 0.0+git20150910.28fd64e+dfsg-5 [648 kB] Get:262 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-metadata all 12-4 [6532 B] Get:263 http://deb.debian.org/debian bookworm/main amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.2 kB] Get:264 http://deb.debian.org/debian bookworm/main amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3672 B] Get:265 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [52.1 kB] Get:266 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-3 [184 kB] Get:267 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get:268 http://deb.debian.org/debian bookworm/main amd64 libjs-json all 0~20210531+~1.0.8-1 [20.7 kB] Get:269 http://deb.debian.org/debian bookworm/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get:270 http://deb.debian.org/debian bookworm/main amd64 libjs-modernizr all 2.6.2+ds1-5 [47.1 kB] Get:271 http://deb.debian.org/debian bookworm/main amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [41.7 kB] Get:272 http://deb.debian.org/debian bookworm/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-2 [116 kB] Get:273 http://deb.debian.org/debian bookworm/main amd64 libjs-sphinxdoc all 5.3.0-2 [130 kB] Get:274 http://deb.debian.org/debian bookworm/main amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [32.1 kB] Get:275 http://deb.debian.org/debian bookworm/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get:276 http://deb.debian.org/debian bookworm/main amd64 liblbfgsb0 amd64 3.0+dfsg.3-11 [28.6 kB] Get:277 http://deb.debian.org/debian bookworm/main amd64 liblua5.3-0 amd64 5.3.6-2 [123 kB] Get:278 http://deb.debian.org/debian bookworm/main amd64 libncurses6 amd64 6.3+20220423-2 [102 kB] Get:279 http://deb.debian.org/debian bookworm/main amd64 libnlopt0 amd64 2.7.1-4+b3 [174 kB] Get:280 http://deb.debian.org/debian bookworm/main amd64 libopenblas0 amd64 0.3.21+ds-3 [32.5 kB] Get:281 http://deb.debian.org/debian bookworm/main amd64 libopenblas-pthread-dev amd64 0.3.21+ds-3 [4972 kB] Get:282 http://deb.debian.org/debian bookworm/main amd64 libopenblas-dev amd64 0.3.21+ds-3 [44.9 kB] Get:283 http://deb.debian.org/debian bookworm/main amd64 libopenjp2-7 amd64 2.5.0-1 [189 kB] Get:284 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.28+b1 [21.6 kB] Get:285 http://deb.debian.org/debian bookworm/main amd64 libpaper-utils amd64 1.1.28+b1 [18.3 kB] Get:286 http://deb.debian.org/debian bookworm/main amd64 libpython3.10 amd64 3.10.9-1 [1753 kB] Get:287 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get:288 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-dev amd64 3.10.9-1 [4124 kB] Get:289 http://deb.debian.org/debian bookworm/main amd64 libpython3-dev amd64 3.10.6-1 [22.0 kB] Get:290 http://deb.debian.org/debian bookworm/main amd64 libpython3-all-dev amd64 3.10.6-1 [1068 B] Get:291 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.1-1 [1713 kB] Get:292 http://deb.debian.org/debian bookworm/main amd64 libpython3.11 amd64 3.11.1-1 [1987 kB] Get:293 http://deb.debian.org/debian bookworm/main amd64 libqhull-r8.0 amd64 2020.2-5 [248 kB] Get:294 http://deb.debian.org/debian bookworm/main amd64 libraqm0 amd64 0.7.0-4 [11.0 kB] Get:295 http://deb.debian.org/debian bookworm/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:296 http://deb.debian.org/debian bookworm/main amd64 libsodium23 amd64 1.0.18-1 [161 kB] Get:297 http://deb.debian.org/debian bookworm/main amd64 libstaden-read14 amd64 1.14.14+dfsg-3 [265 kB] Get:298 http://deb.debian.org/debian bookworm/main amd64 libtbbmalloc2 amd64 2021.7.0-1 [46.1 kB] Get:299 http://deb.debian.org/debian bookworm/main amd64 libtbbbind-2-5 amd64 2021.7.0-1 [13.3 kB] Get:300 http://deb.debian.org/debian bookworm/main amd64 libtbb12 amd64 2021.7.0-1 [79.0 kB] Get:301 http://deb.debian.org/debian bookworm/main amd64 libuv1 amd64 1.44.2-1 [140 kB] Get:302 http://deb.debian.org/debian bookworm/main amd64 libwebpdemux2 amd64 1.2.2-2+b2 [96.3 kB] Get:303 http://deb.debian.org/debian bookworm/main amd64 libwebpmux3 amd64 1.2.2-2+b2 [106 kB] Get:304 http://deb.debian.org/debian bookworm/main amd64 libxsimd-dev amd64 8.1.0-7 [88.8 kB] Get:305 http://deb.debian.org/debian bookworm/main amd64 libxslt1.1 amd64 1.1.35-1 [242 kB] Get:306 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1 [189 kB] Get:307 http://deb.debian.org/debian bookworm/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get:308 http://deb.debian.org/debian bookworm/main amd64 zip amd64 3.0-12 [232 kB] Get:309 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-27 [172 kB] Get:310 http://deb.debian.org/debian bookworm/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:311 http://deb.debian.org/debian bookworm/main amd64 r-base-core amd64 4.2.2.20221110-1 [26.0 MB] Get:312 http://deb.debian.org/debian bookworm/main amd64 r-cran-littler amd64 0.3.17-1 [96.3 kB] Get:313 http://deb.debian.org/debian bookworm/main amd64 littler all 0.3.17-1 [14.4 kB] Get:314 http://deb.debian.org/debian bookworm/main amd64 megadepth amd64 1.2.0-4 [80.2 kB] Get:315 http://deb.debian.org/debian bookworm/main amd64 python3-colorama all 0.4.6-2 [36.8 kB] Get:316 http://deb.debian.org/debian bookworm/main amd64 python3-click all 8.1.3-1 [92.1 kB] Get:317 http://deb.debian.org/debian bookworm/main amd64 python3-humanfriendly all 10.0-3 [85.2 kB] Get:318 http://deb.debian.org/debian bookworm/main amd64 python3-coloredlogs all 15.0.1-1 [47.4 kB] Get:319 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.10.8-1 [77.3 kB] Get:320 http://deb.debian.org/debian bookworm/main amd64 python3-future all 0.18.2-6 [348 kB] Get:321 http://deb.debian.org/debian bookworm/main amd64 python3-markupsafe amd64 2.1.1-1+b1 [13.7 kB] Get:322 http://deb.debian.org/debian bookworm/main amd64 python3-jinja2 all 3.0.3-2 [121 kB] Get:323 http://deb.debian.org/debian bookworm/main amd64 python3-lzstring all 1.0.4-2 [5604 B] Get:324 http://deb.debian.org/debian bookworm/main amd64 python3-markdown all 3.4.1-2 [64.7 kB] Get:325 http://deb.debian.org/debian bookworm/main amd64 python-matplotlib-data all 3.5.2-4 [2725 kB] Get:326 http://deb.debian.org/debian bookworm/main amd64 python3-six all 1.16.0-4 [17.5 kB] Get:327 http://deb.debian.org/debian bookworm/main amd64 python3-dateutil all 2.8.2-1 [78.2 kB] Get:328 http://deb.debian.org/debian bookworm/main amd64 python3-pil amd64 9.2.0-1.1+b1 [468 kB] Get:329 http://deb.debian.org/debian bookworm/main amd64 python3-tk amd64 3.10.8-1 [106 kB] Get:330 http://deb.debian.org/debian bookworm/main amd64 python3-pil.imagetk amd64 9.2.0-1.1+b1 [72.6 kB] Get:331 http://deb.debian.org/debian bookworm/main amd64 python3-pyparsing all 3.0.9-1 [138 kB] Get:332 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.1-1 [567 kB] Get:333 http://deb.debian.org/debian bookworm/main amd64 python3-numpy amd64 1:1.21.5-2 [3845 kB] Get:334 http://deb.debian.org/debian bookworm/main amd64 python3-cycler all 0.11.0-1 [8020 B] Get:335 http://deb.debian.org/debian bookworm/main amd64 python3-brotli amd64 1.0.9-2+b5 [281 kB] Get:336 http://deb.debian.org/debian bookworm/main amd64 python3-decorator all 5.1.1-3 [14.9 kB] Get:337 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.10.8-1 [139 kB] Get:338 http://deb.debian.org/debian bookworm/main amd64 python3-all amd64 3.10.6-1 [1060 B] Get:339 http://deb.debian.org/debian bookworm/main amd64 python3.10-dev amd64 3.10.9-1 [508 kB] Get:340 http://deb.debian.org/debian bookworm/main amd64 python3-dev amd64 3.10.6-1 [25.4 kB] Get:341 http://deb.debian.org/debian bookworm/main amd64 python3-all-dev amd64 3.10.6-1 [1068 B] Get:342 http://deb.debian.org/debian bookworm/main amd64 python3-gast all 0.5.2-2 [9364 B] Get:343 http://deb.debian.org/debian bookworm/main amd64 python3-beniget all 0.4.1-3 [9920 B] Get:344 http://deb.debian.org/debian bookworm/main amd64 python3-ply all 3.11-5 [65.8 kB] Get:345 http://deb.debian.org/debian bookworm/main amd64 python3-pythran amd64 0.11.0+ds-7 [427 kB] Get:346 http://deb.debian.org/debian bookworm/main amd64 python3-scipy amd64 1.8.1-14+b1 [17.2 MB] Get:347 http://deb.debian.org/debian bookworm/main amd64 python3-attr all 22.1.0-1 [64.1 kB] Get:348 http://deb.debian.org/debian bookworm/main amd64 python3-typing-extensions all 4.3.0-2 [43.2 kB] Get:349 http://deb.debian.org/debian bookworm/main amd64 python3-ufolib2 all 0.13.1+dfsg1-1 [32.0 kB] Get:350 http://deb.debian.org/debian bookworm/main amd64 python3-mpmath all 1.2.1-2 [418 kB] Get:351 http://deb.debian.org/debian bookworm/main amd64 python3-sympy all 1.11.1-1 [4358 kB] Get:352 http://deb.debian.org/debian bookworm/main amd64 python3-tz all 2022.6-1 [31.8 kB] Get:353 http://deb.debian.org/debian bookworm/main amd64 python3-appdirs all 1.4.4-3 [13.0 kB] Get:354 http://deb.debian.org/debian bookworm/main amd64 python3-fs all 2.4.16-2 [95.2 kB] Get:355 http://deb.debian.org/debian bookworm/main amd64 python3-lxml amd64 4.9.1-1+b2 [1728 kB] Get:356 http://deb.debian.org/debian bookworm/main amd64 python3-lz4 amd64 4.0.2+dfsg-1+b1 [25.4 kB] Get:357 http://deb.debian.org/debian bookworm/main amd64 python3-unicodedata2 amd64 14.0.0+ds2-1+b1 [301 kB] Get:358 http://deb.debian.org/debian bookworm/main amd64 unicode-data all 15.0.0-1 [7984 kB] Get:359 http://deb.debian.org/debian bookworm/main amd64 python3-fonttools amd64 4.37.4-1+b1 [1096 kB] Get:360 http://deb.debian.org/debian bookworm/main amd64 python3-kiwisolver amd64 1.3.2-1+b3 [56.9 kB] Get:361 http://deb.debian.org/debian bookworm/main amd64 python3-packaging all 21.3-1.1 [34.2 kB] Get:362 http://deb.debian.org/debian bookworm/main amd64 python3-matplotlib amd64 3.5.2-4 [7410 kB] Get:363 http://deb.debian.org/debian bookworm/main amd64 python3-networkx all 2.6.3-1 [943 kB] Get:364 http://deb.debian.org/debian bookworm/main amd64 python3-certifi all 2022.9.24-1 [153 kB] Get:365 http://deb.debian.org/debian bookworm/main amd64 python3-charset-normalizer all 3.0.1-2 [49.3 kB] Get:366 http://deb.debian.org/debian bookworm/main amd64 python3-idna all 3.3-1 [39.4 kB] Get:367 http://deb.debian.org/debian bookworm/main amd64 python3-urllib3 all 1.26.12-1 [117 kB] Get:368 http://deb.debian.org/debian bookworm/main amd64 python3-chardet all 4.0.0-2 [99.1 kB] Get:369 http://deb.debian.org/debian bookworm/main amd64 python3-requests all 2.28.1+dfsg-1 [67.9 kB] Get:370 http://deb.debian.org/debian bookworm/main amd64 python3-commonmark all 0.9.1-4 [45.1 kB] Get:371 http://deb.debian.org/debian bookworm/main amd64 python3-pygments all 2.13.0+dfsg-1 [767 kB] Get:372 http://deb.debian.org/debian bookworm/main amd64 python3-rich all 12.6.0-1 [200 kB] Get:373 http://deb.debian.org/debian bookworm/main amd64 python3-simplejson amd64 3.17.6-1+b2 [66.2 kB] Get:374 http://deb.debian.org/debian bookworm/main amd64 python3-colormath all 3.0.0-4 [34.7 kB] Get:375 http://deb.debian.org/debian bookworm/main amd64 python3-spectra all 0.0.11-4 [16.5 kB] Get:376 http://deb.debian.org/debian bookworm/main amd64 python3-yaml amd64 6.0-3+b1 [159 kB] Get:377 http://deb.debian.org/debian bookworm/main amd64 multiqc all 1.12+dfsg-1 [629 kB] Get:378 http://deb.debian.org/debian bookworm/main amd64 node-bootstrap-sass all 3.4.3-2 [186 kB] Get:379 http://deb.debian.org/debian bookworm/main amd64 node-html5shiv all 3.7.3+dfsg-5 [13.2 kB] Get:380 http://deb.debian.org/debian bookworm/main amd64 node-normalize.css all 8.0.1-5 [12.7 kB] Get:381 http://deb.debian.org/debian bookworm/main amd64 pandoc-data all 2.17.1.1-1.1 [417 kB] Get:382 http://deb.debian.org/debian bookworm/main amd64 pandoc amd64 2.17.1.1-1.1 [21.3 MB] Get:383 http://deb.debian.org/debian bookworm/main amd64 python3-deeptoolsintervals amd64 0.1.9-3+b5 [51.3 kB] Get:384 http://deb.debian.org/debian bookworm/main amd64 sphinx-common all 5.3.0-2 [652 kB] Get:385 http://deb.debian.org/debian bookworm/main amd64 python3-alabaster all 0.7.12-1 [20.8 kB] Get:386 http://deb.debian.org/debian bookworm/main amd64 python-babel-localedata all 2.10.3-1 [5615 kB] Get:387 http://deb.debian.org/debian bookworm/main amd64 python3-babel all 2.10.3-1 [103 kB] Get:388 http://deb.debian.org/debian bookworm/main amd64 python3-roman all 3.3-3 [9880 B] Get:389 http://deb.debian.org/debian bookworm/main amd64 python3-docutils all 0.17.1+dfsg-3 [380 kB] Get:390 http://deb.debian.org/debian bookworm/main amd64 python3-imagesize all 1.4.1-1 [6688 B] Get:391 http://deb.debian.org/debian bookworm/main amd64 python3-snowballstemmer all 2.2.0-2 [57.8 kB] Get:392 http://deb.debian.org/debian bookworm/main amd64 python3-sphinx all 5.3.0-2 [549 kB] Get:393 http://deb.debian.org/debian bookworm/main amd64 python3-numpydoc all 1.5.0-1 [43.0 kB] Get:394 http://deb.debian.org/debian bookworm/main amd64 python3-fastjsonschema all 2.15.1-3 [18.9 kB] Get:395 http://deb.debian.org/debian bookworm/main amd64 python3-pyrsistent amd64 0.18.1-1+b2 [60.9 kB] Get:396 http://deb.debian.org/debian bookworm/main amd64 python3-jsonschema all 4.9.1-3 [66.0 kB] Get:397 http://deb.debian.org/debian bookworm/main amd64 python3-traitlets all 5.5.0-1 [92.4 kB] Get:398 http://deb.debian.org/debian bookworm/main amd64 python3-jupyter-core all 4.12.0-1 [27.3 kB] Get:399 http://deb.debian.org/debian bookworm/main amd64 python3-nbformat all 5.5.0-1 [43.2 kB] Get:400 http://deb.debian.org/debian bookworm/main amd64 python3-setuptools all 65.5.0-1 [519 kB] Get:401 http://deb.debian.org/debian bookworm/main amd64 python3-pbr all 5.10.0-2 [61.4 kB] Get:402 http://deb.debian.org/debian bookworm/main amd64 python3-tenacity all 8.0.1-1 [43.4 kB] Get:403 http://deb.debian.org/debian bookworm/main amd64 python3-plotly all 5.4.1+dfsg-1 [2613 kB] Get:404 http://deb.debian.org/debian bookworm/main amd64 python3-py2bit amd64 0.3.1-1+b1 [19.0 kB] Get:405 http://deb.debian.org/debian bookworm/main amd64 python3-pybigwig amd64 0.3.18+dfsg-1+b2 [37.1 kB] Get:406 http://deb.debian.org/debian bookworm/main amd64 python3-pysam amd64 0.20.0+ds-1 [1678 kB] Get:407 http://deb.debian.org/debian bookworm/main amd64 python3-deeptools all 3.5.1-2 [158 kB] Get:408 http://deb.debian.org/debian bookworm/main amd64 python3-htseq amd64 1.99.2-1+b2 [390 kB] Get:409 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocgenerics all 0.44.0-2 [600 kB] Get:410 http://deb.debian.org/debian bookworm/main amd64 r-bioc-s4vectors amd64 0.36.1-1 [2026 kB] Get:411 http://deb.debian.org/debian bookworm/main amd64 r-bioc-iranges amd64 2.32.0-1 [2222 kB] Get:412 http://deb.debian.org/debian bookworm/main amd64 r-cran-bitops amd64 1.0-7-1 [30.2 kB] Get:413 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcurl amd64 1.98-1.9+dfsg-1 [777 kB] Get:414 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodbdata all 1.2.9-1 [11.7 MB] Get:415 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodb all 1.34.4-1 [3921 kB] Get:416 http://deb.debian.org/debian bookworm/main amd64 r-bioc-zlibbioc all 1.44.0+dfsg-1 [9200 B] Get:417 http://deb.debian.org/debian bookworm/main amd64 r-bioc-xvector amd64 0.38.0-1 [618 kB] Get:418 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicranges amd64 1.50.1+dfsg-1 [1795 kB] Get:419 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrixstats amd64 0.63.0-1 [470 kB] Get:420 http://deb.debian.org/debian bookworm/main amd64 r-bioc-matrixgenerics all 1.10.0-1 [302 kB] Get:421 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biobase amd64 2.58.0-2 [2112 kB] Get:422 http://deb.debian.org/debian bookworm/main amd64 r-cran-lattice amd64 0.20-45-3 [1177 kB] Get:423 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrix amd64 1.5-1-1 [3762 kB] Get:424 http://deb.debian.org/debian bookworm/main amd64 r-bioc-delayedarray amd64 0.24.0+dfsg-1 [1937 kB] Get:425 http://deb.debian.org/debian bookworm/main amd64 r-bioc-summarizedexperiment all 1.28.0+dfsg-1 [2018 kB] Get:426 http://deb.debian.org/debian bookworm/main amd64 r-cran-formatr all 1.12-1 [151 kB] Get:427 http://deb.debian.org/debian bookworm/main amd64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get:428 http://deb.debian.org/debian bookworm/main amd64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get:429 http://deb.debian.org/debian bookworm/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get:430 http://deb.debian.org/debian bookworm/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get:431 http://deb.debian.org/debian bookworm/main amd64 r-cran-codetools all 0.2-18-1 [91.8 kB] Get:432 http://deb.debian.org/debian bookworm/main amd64 r-cran-bh all 1.74.0-2 [5524 B] Get:433 http://deb.debian.org/debian bookworm/main amd64 r-cran-cpp11 all 0.4.3-1 [223 kB] Get:434 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocparallel amd64 1.32.4-1 [1336 kB] Get:435 http://deb.debian.org/debian bookworm/main amd64 r-cran-locfit amd64 1.5-9.6-1 [506 kB] Get:436 http://deb.debian.org/debian bookworm/main amd64 r-cran-dbi all 1.1.3-1 [687 kB] Get:437 http://deb.debian.org/debian bookworm/main amd64 r-cran-bit amd64 4.0.5-1 [1070 kB] Get:438 http://deb.debian.org/debian bookworm/main amd64 r-cran-bit64 amd64 4.0.5-1 [463 kB] Get:439 http://deb.debian.org/debian bookworm/main amd64 r-cran-rlang amd64 1.0.6-1 [1618 kB] Get:440 http://deb.debian.org/debian bookworm/main amd64 r-cran-cli amd64 3.4.1-1 [1245 kB] Get:441 http://deb.debian.org/debian bookworm/main amd64 r-cran-glue amd64 1.6.2-1 [152 kB] Get:442 http://deb.debian.org/debian bookworm/main amd64 r-cran-lifecycle all 1.0.3+dfsg-1 [109 kB] Get:443 http://deb.debian.org/debian bookworm/main amd64 r-cran-vctrs amd64 0.5.1-1 [1349 kB] Get:444 http://deb.debian.org/debian bookworm/main amd64 r-cran-blob all 1.2.3-1 [49.5 kB] Get:445 http://deb.debian.org/debian bookworm/main amd64 r-cran-fastmap amd64 1.1.0-1 [64.7 kB] Get:446 http://deb.debian.org/debian bookworm/main amd64 r-cran-cachem amd64 1.0.6-1+b1 [70.8 kB] Get:447 http://deb.debian.org/debian bookworm/main amd64 r-cran-memoise all 2.0.1-1 [53.8 kB] Get:448 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgconfig all 2.0.3-2 [19.6 kB] Get:449 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgkitten all 0.2.2-2 [27.0 kB] Get:450 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpp amd64 1.0.9-1 [2078 kB] Get:451 http://deb.debian.org/debian bookworm/main amd64 r-cran-plogr all 0.2.0-3 [14.9 kB] Get:452 http://deb.debian.org/debian bookworm/main amd64 r-cran-rsqlite amd64 2.2.19-1 [1122 kB] Get:453 http://deb.debian.org/debian bookworm/main amd64 r-cran-curl amd64 4.3.3+dfsg-1 [153 kB] Get:454 http://deb.debian.org/debian bookworm/main amd64 r-cran-jsonlite amd64 1.8.4+dfsg-1 [442 kB] Get:455 http://deb.debian.org/debian bookworm/main amd64 r-cran-mime amd64 0.12-1+b1 [36.0 kB] Get:456 http://deb.debian.org/debian bookworm/main amd64 r-cran-sys amd64 3.4.1-1 [42.7 kB] Get:457 http://deb.debian.org/debian bookworm/main amd64 r-cran-askpass amd64 1.1-2 [22.2 kB] Get:458 http://deb.debian.org/debian bookworm/main amd64 r-cran-openssl amd64 2.0.5+dfsg-1 [391 kB] Get:459 http://deb.debian.org/debian bookworm/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get:460 http://deb.debian.org/debian bookworm/main amd64 r-cran-httr all 1.4.4+dfsg-1 [467 kB] Get:461 http://deb.debian.org/debian bookworm/main amd64 r-cran-png amd64 0.1-8-1 [41.1 kB] Get:462 http://deb.debian.org/debian bookworm/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get:463 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biostrings amd64 2.66.0-1 [13.8 MB] Get:464 http://deb.debian.org/debian bookworm/main amd64 r-bioc-keggrest all 1.38.0+dfsg-1 [179 kB] Get:465 http://deb.debian.org/debian bookworm/main amd64 r-bioc-annotationdbi all 1.60.0-1 [4696 kB] Get:466 http://deb.debian.org/debian bookworm/main amd64 r-cran-xml amd64 3.99-0.13-1 [1717 kB] Get:467 http://deb.debian.org/debian bookworm/main amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] Get:468 http://deb.debian.org/debian bookworm/main amd64 r-bioc-annotate all 1.76.0+dfsg-1 [1727 kB] Get:469 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcolorbrewer all 1.1-3-1 [54.7 kB] Get:470 http://deb.debian.org/debian bookworm/main amd64 r-bioc-geneplotter all 1.76.0-1 [1488 kB] Get:471 http://deb.debian.org/debian bookworm/main amd64 r-cran-digest amd64 0.6.31-1 [184 kB] Get:472 http://deb.debian.org/debian bookworm/main amd64 r-cran-gtable all 0.3.1+dfsg-1 [165 kB] Get:473 http://deb.debian.org/debian bookworm/main amd64 r-cran-isoband amd64 0.2.6-1 [1790 kB] Get:474 http://deb.debian.org/debian bookworm/main amd64 r-cran-mass amd64 7.3-58.1-1 [1122 kB] Get:475 http://deb.debian.org/debian bookworm/main amd64 r-cran-nlme amd64 3.1.160-1 [2255 kB] Get:476 http://deb.debian.org/debian bookworm/main amd64 r-cran-mgcv amd64 1.8-41-1 [3171 kB] Get:477 http://deb.debian.org/debian bookworm/main amd64 r-cran-farver amd64 2.1.1-1 [1404 kB] Get:478 http://deb.debian.org/debian bookworm/main amd64 r-cran-labeling all 0.4.2-1 [62.7 kB] Get:479 http://deb.debian.org/debian bookworm/main amd64 r-cran-colorspace amd64 2.0-3+dfsg-1 [1698 kB] Get:480 http://deb.debian.org/debian bookworm/main amd64 r-cran-munsell all 0.5.0-2 [236 kB] Get:481 http://deb.debian.org/debian bookworm/main amd64 r-cran-viridislite all 0.4.1-1 [1299 kB] Get:482 http://deb.debian.org/debian bookworm/main amd64 r-cran-scales all 1.2.1-1 [614 kB] Get:483 http://deb.debian.org/debian bookworm/main amd64 r-cran-fansi amd64 1.0.3-1 [617 kB] Get:484 http://deb.debian.org/debian bookworm/main amd64 r-cran-magrittr amd64 2.0.3-1 [201 kB] Get:485 http://deb.debian.org/debian bookworm/main amd64 r-cran-utf8 amd64 1.2.2-1 [133 kB] Get:486 http://deb.debian.org/debian bookworm/main amd64 r-cran-pillar all 1.8.1+dfsg-1 [463 kB] Get:487 http://deb.debian.org/debian bookworm/main amd64 r-cran-tibble amd64 3.1.8+dfsg-1 [513 kB] Get:488 http://deb.debian.org/debian bookworm/main amd64 r-cran-withr all 2.5.0-1 [236 kB] Get:489 http://deb.debian.org/debian bookworm/main amd64 r-cran-ggplot2 all 3.3.6+dfsg-1 [3213 kB] Get:490 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpparmadillo amd64 0.11.4.2.1-1 [849 kB] Get:491 http://deb.debian.org/debian bookworm/main amd64 r-bioc-deseq2 amd64 1.38.1+dfsg-1 [1288 kB] Get:492 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhtslib amd64 2.0.0+dfsg-1 [1287 kB] Get:493 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rsamtools amd64 2.14.0-1 [3755 kB] Get:494 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicalignments amd64 1.34.0-1 [2112 kB] Get:495 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocio all 1.8.0+dfsg-1 [201 kB] Get:496 http://deb.debian.org/debian bookworm/main amd64 r-cran-rjson amd64 0.2.21-1 [139 kB] Get:497 http://deb.debian.org/debian bookworm/main amd64 r-cran-yaml amd64 2.3.6-1 [104 kB] Get:498 http://deb.debian.org/debian bookworm/main amd64 r-cran-restfulr amd64 0.0.15-1 [382 kB] Get:499 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rtracklayer amd64 1.58.0-1 [5104 kB] Get:500 http://deb.debian.org/debian bookworm/main amd64 r-bioc-tximport all 1.26.0+dfsg-1 [87.8 kB] Get:501 http://deb.debian.org/debian bookworm/main amd64 r-cran-corrplot all 0.92-1 [131 kB] Get:502 http://deb.debian.org/debian bookworm/main amd64 r-cran-base64enc amd64 0.1-3-3 [27.9 kB] Get:503 http://deb.debian.org/debian bookworm/main amd64 r-cran-ellipsis amd64 0.3.2-2 [35.1 kB] Get:504 http://deb.debian.org/debian bookworm/main amd64 r-cran-htmltools amd64 0.5.4-1 [364 kB] Get:505 http://deb.debian.org/debian bookworm/main amd64 r-cran-lazyeval amd64 0.2.2-1+b1 [142 kB] Get:506 http://deb.debian.org/debian bookworm/main amd64 r-cran-later amd64 1.3.0+dfsg-1+b1 [117 kB] Get:507 http://deb.debian.org/debian bookworm/main amd64 r-cran-promises amd64 1.2.0.1+dfsg-1 [274 kB] Get:508 http://deb.debian.org/debian bookworm/main amd64 r-cran-httpuv amd64 1.6.6+dfsg-1 [473 kB] Get:509 http://deb.debian.org/debian bookworm/main amd64 r-cran-fontawesome all 0.4.0-1 [1298 kB] Get:510 http://deb.debian.org/debian bookworm/main amd64 r-cran-sourcetools amd64 0.1.7-3 [45.3 kB] Get:511 http://deb.debian.org/debian bookworm/main amd64 r-cran-commonmark amd64 1.8.1-1 [117 kB] Get:512 http://deb.debian.org/debian bookworm/main amd64 r-cran-fs amd64 1.5.2+dfsg-1 [225 kB] Get:513 http://deb.debian.org/debian bookworm/main amd64 r-cran-rappdirs amd64 0.3.3-1 [47.4 kB] Get:514 http://deb.debian.org/debian bookworm/main amd64 r-cran-sass amd64 0.4.4+dfsg-1 [941 kB] Get:515 http://deb.debian.org/debian bookworm/main amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.1 kB] Get:516 http://deb.debian.org/debian bookworm/main amd64 r-cran-bslib all 0.4.1+dfsg-1 [3723 kB] Get:517 http://deb.debian.org/debian bookworm/main amd64 r-cran-shiny all 1.7.3+dfsg-1 [2697 kB] Get:518 http://deb.debian.org/debian bookworm/main amd64 r-cran-crosstalk all 1.2.0+dfsg-1 [171 kB] Get:519 http://deb.debian.org/debian bookworm/main amd64 r-cran-data.table amd64 1.14.6+dfsg-1 [1711 kB] Get:520 http://deb.debian.org/debian bookworm/main amd64 r-cran-htmlwidgets all 1.5.4+dfsg-1 [124 kB] Get:521 http://deb.debian.org/debian bookworm/main amd64 r-cran-dt all 0.26+dfsg-1 [235 kB] Get:522 http://deb.debian.org/debian bookworm/main amd64 r-cran-ggrepel amd64 0.9.2-1 [247 kB] Get:523 http://deb.debian.org/debian bookworm/main amd64 r-cran-ggsci all 2.9-3 [2905 kB] Get:524 http://deb.debian.org/debian bookworm/main amd64 r-cran-generics all 0.1.3-1 [81.4 kB] Get:525 http://deb.debian.org/debian bookworm/main amd64 r-cran-tidyselect amd64 1.2.0+dfsg-1 [219 kB] Get:526 http://deb.debian.org/debian bookworm/main amd64 r-cran-dplyr amd64 1.0.10-1 [1227 kB] Get:527 http://deb.debian.org/debian bookworm/main amd64 r-cran-purrr amd64 0.3.5-1 [404 kB] Get:528 http://deb.debian.org/debian bookworm/main amd64 r-cran-tidyr amd64 1.2.1-1 [856 kB] Get:529 http://deb.debian.org/debian bookworm/main amd64 r-cran-cowplot all 1.1.1+dfsg-1 [636 kB] Get:530 http://deb.debian.org/debian bookworm/main amd64 r-cran-ggsignif all 0.6.4-1 [589 kB] Get:531 http://deb.debian.org/debian bookworm/main amd64 r-cran-gridextra all 2.3-3 [1024 kB] Get:532 http://deb.debian.org/debian bookworm/main amd64 r-cran-polynom all 1.4-1+dfsg-1 [92.5 kB] Get:533 http://deb.debian.org/debian bookworm/main amd64 r-cran-backports amd64 1.4.1-1 [101 kB] Get:534 http://deb.debian.org/debian bookworm/main amd64 r-cran-stringi amd64 1.7.8-1+b1 [861 kB] Get:535 http://deb.debian.org/debian bookworm/main amd64 r-cran-stringr all 1.4.1-1 [202 kB] Get:536 http://deb.debian.org/debian bookworm/main amd64 r-cran-broom all 1.0.1+dfsg-1 [1777 kB] Get:537 http://deb.debian.org/debian bookworm/main amd64 r-cran-cardata all 3.0.5-1 [1797 kB] Get:538 http://deb.debian.org/debian bookworm/main amd64 r-cran-abind all 1.4-5-2 [64.6 kB] Get:539 http://deb.debian.org/debian bookworm/main amd64 r-cran-nnet amd64 7.3-18-1 [112 kB] Get:540 http://deb.debian.org/debian bookworm/main amd64 r-cran-boot all 1.3-28.1-1 [620 kB] Get:541 http://deb.debian.org/debian bookworm/main amd64 r-cran-minqa amd64 1.2.5-1 [113 kB] Get:542 http://deb.debian.org/debian bookworm/main amd64 r-cran-brio amd64 1.1.3-1+b1 [35.5 kB] Get:543 http://deb.debian.org/debian bookworm/main amd64 r-cran-ps amd64 1.7.2-1 [308 kB] Get:544 http://deb.debian.org/debian bookworm/main amd64 r-cran-processx amd64 3.8.0-1 [339 kB] Get:545 http://deb.debian.org/debian bookworm/main amd64 r-cran-callr all 3.7.2-1 [418 kB] Get:546 http://deb.debian.org/debian bookworm/main amd64 r-cran-rprojroot all 2.0.3-1 [119 kB] Get:547 http://deb.debian.org/debian bookworm/main amd64 r-cran-desc all 1.4.2-1 [348 kB] Get:548 http://deb.debian.org/debian bookworm/main amd64 r-cran-evaluate all 0.18-1 [85.2 kB] Get:549 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgload all 1.3.2-1 [206 kB] Get:550 http://deb.debian.org/debian bookworm/main amd64 r-cran-praise all 1.0.0-4 [20.1 kB] Get:551 http://deb.debian.org/debian bookworm/main amd64 r-cran-diffobj amd64 0.3.5-1+b1 [1122 kB] Get:552 http://deb.debian.org/debian bookworm/main amd64 r-cran-rematch2 all 2.1.2-2 [46.3 kB] Get:553 http://deb.debian.org/debian bookworm/main amd64 r-cran-waldo all 0.4.0-1 [116 kB] Get:554 http://deb.debian.org/debian bookworm/main amd64 r-cran-testthat amd64 3.1.6-1 [1545 kB] Get:555 http://deb.debian.org/debian bookworm/main amd64 r-cran-nloptr amd64 2.0.3-1 [375 kB] Get:556 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcppeigen amd64 0.3.3.9.3-1 [1191 kB] Get:557 http://deb.debian.org/debian bookworm/main amd64 r-cran-statmod amd64 1.4.37-1 [259 kB] Get:558 http://deb.debian.org/debian bookworm/main amd64 r-cran-lme4 amd64 1.1-31-1 [4087 kB] Get:559 http://deb.debian.org/debian bookworm/main amd64 r-cran-numderiv all 2016.8-1.1-3 [115 kB] Get:560 http://deb.debian.org/debian bookworm/main amd64 r-cran-xfun amd64 0.35+dfsg-1 [385 kB] Get:561 http://deb.debian.org/debian bookworm/main amd64 r-cran-highr all 0.9+dfsg-1 [38.6 kB] Get:562 http://deb.debian.org/debian bookworm/main amd64 r-cran-knitr all 1.41+dfsg-1 [896 kB] Get:563 http://deb.debian.org/debian bookworm/main amd64 r-cran-pbkrtest all 0.5.1-1 [339 kB] Get:564 http://deb.debian.org/debian bookworm/main amd64 r-cran-sparsem amd64 1.81-1 [905 kB] Get:565 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrixmodels all 0.5-1-1 [375 kB] Get:566 http://deb.debian.org/debian bookworm/main amd64 r-cran-survival amd64 3.4-0-1 [5803 kB] Get:567 http://deb.debian.org/debian bookworm/main amd64 r-cran-class amd64 7.3-20-1 [87.8 kB] Get:568 http://deb.debian.org/debian bookworm/main amd64 r-cran-proxy amd64 0.4-27-1 [182 kB] Get:569 http://deb.debian.org/debian bookworm/main amd64 r-cran-e1071 amd64 1.7-12-1 [555 kB] Get:570 http://deb.debian.org/debian bookworm/main amd64 r-cran-iterators all 1.0.14-1 [337 kB] Get:571 http://deb.debian.org/debian bookworm/main amd64 r-cran-foreach all 1.5.2-1 [122 kB] Get:572 http://deb.debian.org/debian bookworm/main amd64 r-cran-modelmetrics amd64 1.2.2.2-1+b1 [125 kB] Get:573 http://deb.debian.org/debian bookworm/main amd64 r-cran-plyr amd64 1.8.8-1 [832 kB] Get:574 http://deb.debian.org/debian bookworm/main amd64 r-cran-proc amd64 1.18.0-1+b1 [983 kB] Get:575 http://deb.debian.org/debian bookworm/main amd64 r-cran-gower amd64 1.0.0-1 [157 kB] Get:576 http://deb.debian.org/debian bookworm/main amd64 r-cran-hardhat all 1.2.0+dfsg-1 [622 kB] Get:577 http://deb.debian.org/debian bookworm/main amd64 r-cran-rpart amd64 4.1.19-1 [917 kB] Get:578 http://deb.debian.org/debian bookworm/main amd64 r-cran-kernsmooth amd64 2.23-20-1 [91.5 kB] Get:579 http://deb.debian.org/debian bookworm/main amd64 r-cran-globals all 0.16.2-1 [118 kB] Get:580 http://deb.debian.org/debian bookworm/main amd64 r-cran-listenv all 0.8.0+dfsg-1 [105 kB] Get:581 http://deb.debian.org/debian bookworm/main amd64 r-cran-parallelly all 1.32.1-1 [314 kB] Get:582 http://deb.debian.org/debian bookworm/main amd64 r-cran-future all 1.29.0+dfsg-1 [634 kB] Get:583 http://deb.debian.org/debian bookworm/main amd64 r-cran-future.apply all 1.10.0+dfsg-1 [165 kB] Get:584 http://deb.debian.org/debian bookworm/main amd64 r-cran-progressr all 0.11.0-1 [273 kB] Get:585 http://deb.debian.org/debian bookworm/main amd64 r-cran-squarem all 2021.1-1 [179 kB] Get:586 http://deb.debian.org/debian bookworm/main amd64 r-cran-lava all 1.7.0+dfsg-1 [2204 kB] Get:587 http://deb.debian.org/debian bookworm/main amd64 r-cran-prodlim amd64 2019.11.13-1+b1 [395 kB] Get:588 http://deb.debian.org/debian bookworm/main amd64 r-cran-ipred amd64 0.9-13-1 [386 kB] Get:589 http://deb.debian.org/debian bookworm/main amd64 r-cran-timechange amd64 0.1.1-3 [175 kB] Get:590 http://deb.debian.org/debian bookworm/main amd64 r-cran-lubridate amd64 1.9.0+dfsg-1 [991 kB] Get:591 http://deb.debian.org/debian bookworm/main amd64 r-cran-timedate amd64 4021.107-1 [1742 kB] Get:592 http://deb.debian.org/debian bookworm/main amd64 r-cran-recipes all 1.0.2+dfsg-1 [1717 kB] Get:593 http://deb.debian.org/debian bookworm/main amd64 r-cran-reshape2 amd64 1.4.4-2 [114 kB] Get:594 http://deb.debian.org/debian bookworm/main amd64 r-cran-caret amd64 6.0-93+dfsg-1 [3447 kB] Get:595 http://deb.debian.org/debian bookworm/main amd64 r-cran-conquer amd64 1.3.1-1 [465 kB] Get:596 http://deb.debian.org/debian bookworm/main amd64 r-cran-quantreg amd64 5.94-1 [1535 kB] Get:597 http://deb.debian.org/debian bookworm/main amd64 r-cran-sp amd64 1:1.5-1+dfsg-1 [1531 kB] Get:598 http://deb.debian.org/debian bookworm/main amd64 r-cran-foreign amd64 0.8.84-1 [250 kB] Get:599 http://deb.debian.org/debian bookworm/main amd64 r-cran-maptools amd64 1:1.1-5+dfsg-1 [1554 kB] Get:600 http://deb.debian.org/debian bookworm/main amd64 r-cran-forcats all 0.5.2-1 [368 kB] Get:601 http://deb.debian.org/debian bookworm/main amd64 r-cran-hms all 1.1.2-1 [104 kB] Get:602 http://deb.debian.org/debian bookworm/main amd64 r-cran-clipr all 0.8.0-1 [53.0 kB] Get:603 http://deb.debian.org/debian bookworm/main amd64 r-cran-tzdb amd64 0.3.0-1 [484 kB] Get:604 http://deb.debian.org/debian bookworm/main amd64 r-cran-prettyunits all 1.1.1-2 [39.1 kB] Get:605 http://deb.debian.org/debian bookworm/main amd64 r-cran-progress all 1.2.2-2 [88.9 kB] Get:606 http://deb.debian.org/debian bookworm/main amd64 r-cran-vroom amd64 1.6.0-1 [842 kB] Get:607 http://deb.debian.org/debian bookworm/main amd64 r-cran-readr amd64 2.1.3-1 [779 kB] Get:608 http://deb.debian.org/debian bookworm/main amd64 r-cran-haven amd64 2.5.1-1 [343 kB] Get:609 http://deb.debian.org/debian bookworm/main amd64 r-cran-rematch all 1.0.1-3 [14.1 kB] Get:610 http://deb.debian.org/debian bookworm/main amd64 r-cran-cellranger all 1.1.0-3 [100 kB] Get:611 http://deb.debian.org/debian bookworm/main amd64 r-cran-readxl amd64 1.4.1-1 [723 kB] Get:612 http://deb.debian.org/debian bookworm/main amd64 r-cran-zip amd64 2.2.2-1 [113 kB] Get:613 http://deb.debian.org/debian bookworm/main amd64 r-cran-openxlsx amd64 4.2.5.1-1 [1932 kB] Get:614 http://deb.debian.org/debian bookworm/main amd64 r-cran-rio all 0.5.29-1 [474 kB] Get:615 http://deb.debian.org/debian bookworm/main amd64 r-cran-car all 3.1-1-1 [1699 kB] Get:616 http://deb.debian.org/debian bookworm/main amd64 r-cran-rstatix all 0.7.1-1 [608 kB] Get:617 http://deb.debian.org/debian bookworm/main amd64 r-cran-ggpubr all 0.4.0-1 [1898 kB] Get:618 http://deb.debian.org/debian bookworm/main amd64 r-cran-miniui all 0.1.1.1-3 [35.9 kB] Get:619 http://deb.debian.org/debian bookworm/main amd64 r-cran-shinyjs all 2.1.0-1 [1009 kB] Get:620 http://deb.debian.org/debian bookworm/main amd64 r-cran-colourpicker all 1.2.0+dfsg-1 [1165 kB] Get:621 http://deb.debian.org/debian bookworm/main amd64 r-cran-plotly all 4.10.0+dfsg-1 [3279 kB] Get:622 http://deb.debian.org/debian bookworm/main amd64 r-cran-gprofiler2 all 0.2.1+dfsg-1 [124 kB] Get:623 http://deb.debian.org/debian bookworm/main amd64 r-cran-pheatmap all 1.0.12-2 [77.9 kB] Get:624 http://deb.debian.org/debian bookworm/main amd64 r-cran-tinytex all 0.42-1 [138 kB] Get:625 http://deb.debian.org/debian bookworm/main amd64 r-cran-rmarkdown all 2.18+dfsg-1 [2269 kB] Get:626 http://deb.debian.org/debian bookworm/main amd64 salmon amd64 1.9.0+ds1-1 [2387 kB] Get:627 http://deb.debian.org/debian bookworm/main amd64 samtools amd64 1.16.1-1 [607 kB] Get:628 http://deb.debian.org/debian bookworm/main amd64 python3-configargparse all 1.5.3-1 [26.1 kB] Get:629 http://deb.debian.org/debian bookworm/main amd64 python3-connection-pool all 0.0.3-2 [5584 B] Get:630 http://deb.debian.org/debian bookworm/main amd64 python3-datrie amd64 0.8.2-4 [154 kB] Get:631 http://deb.debian.org/debian bookworm/main amd64 python3-smmap all 5.0.0-1 [21.0 kB] Get:632 http://deb.debian.org/debian bookworm/main amd64 python3-gitdb all 4.0.9-2 [45.7 kB] Get:633 http://deb.debian.org/debian bookworm/main amd64 python3-git all 3.1.27-1 [133 kB] Get:634 http://deb.debian.org/debian bookworm/main amd64 python3-psutil amd64 5.9.4-1 [189 kB] Get:635 http://deb.debian.org/debian bookworm/main amd64 python3-pulp all 2.6.0+dfsg-1 [66.0 kB] Get:636 http://deb.debian.org/debian bookworm/main amd64 python3-ratelimiter amd64 1.2.0.post0-3 [5840 B] Get:637 http://deb.debian.org/debian bookworm/main amd64 python3-isodate all 0.6.1-1 [25.3 kB] Get:638 http://deb.debian.org/debian bookworm/main amd64 python3-blinker all 1.5-1 [14.7 kB] Get:639 http://deb.debian.org/debian bookworm/main amd64 python3-cffi-backend amd64 1.15.1-4 [94.2 kB] Get:640 http://deb.debian.org/debian bookworm/main amd64 python3-cryptography amd64 3.4.8-2 [233 kB] Get:641 http://deb.debian.org/debian bookworm/main amd64 python3-jwt all 2.4.0-2 [24.4 kB] Get:642 http://deb.debian.org/debian bookworm/main amd64 python3-oauthlib all 3.2.1-2 [95.2 kB] Get:643 http://deb.debian.org/debian bookworm/main amd64 python3-requests-oauthlib all 1.3.0+ds-0.1 [20.9 kB] Get:644 http://deb.debian.org/debian bookworm/main amd64 python3-msrest all 0.6.21-2 [48.0 kB] Get:645 http://deb.debian.org/debian bookworm/main amd64 python3-adal all 1.2.7-2 [32.1 kB] Get:646 http://deb.debian.org/debian bookworm/main amd64 python3-msrestazure all 0.6.4-2 [26.4 kB] Get:647 http://deb.debian.org/debian bookworm/main amd64 python3-avro all 1.11.1+dfsg-1 [70.9 kB] Get:648 http://deb.debian.org/debian bookworm/main amd64 python3-multidict amd64 6.0.2-1+b1 [35.6 kB] Get:649 http://deb.debian.org/debian bookworm/main amd64 python3-yarl amd64 1.8.1-1+b1 [66.0 kB] Get:650 http://deb.debian.org/debian bookworm/main amd64 python3-async-timeout all 4.0.2-1 [7476 B] Get:651 http://deb.debian.org/debian bookworm/main amd64 python3-frozenlist amd64 1.3.3-1 [38.8 kB] Get:652 http://deb.debian.org/debian bookworm/main amd64 python3-aiosignal all 1.3.1-1 [6016 B] Get:653 http://deb.debian.org/debian bookworm/main amd64 python3-aiohttp amd64 3.8.3-1+b1 [311 kB] Get:654 http://deb.debian.org/debian bookworm/main amd64 python3-azure-storage all 20221101+git-2 [280 kB] Get:655 http://deb.debian.org/debian bookworm/main amd64 python3-marshmallow all 3.18.0-1 [66.3 kB] Get:656 http://deb.debian.org/debian bookworm/main amd64 python3-msal all 1.20.0-1 [85.6 kB] Get:657 http://deb.debian.org/debian bookworm/main amd64 python3-gi amd64 3.42.2-3 [233 kB] Get:658 http://deb.debian.org/debian bookworm/main amd64 python3-portalocker all 2.2.1-1 [18.5 kB] Get:659 http://deb.debian.org/debian bookworm/main amd64 python3-msal-extensions all 1.0.0-2 [16.9 kB] Get:660 http://deb.debian.org/debian bookworm/main amd64 python3-ruamel.yaml.clib amd64 0.2.7-1+b1 [154 kB] Get:661 http://deb.debian.org/debian bookworm/main amd64 python3-ruamel.yaml all 0.17.16-1 [102 kB] Get:662 http://deb.debian.org/debian bookworm/main amd64 python3-strictyaml all 1.6.1-2 [92.9 kB] Get:663 http://deb.debian.org/debian bookworm/main amd64 python3-tqdm all 4.64.0-2 [96.0 kB] Get:664 http://deb.debian.org/debian bookworm/main amd64 python3-uamqp amd64 1.5.3-1+b3 [819 kB] Get:665 http://deb.debian.org/debian bookworm/main amd64 python3-azure all 20221101+git-2 [13.3 MB] Get:666 http://deb.debian.org/debian bookworm/main amd64 python3-jmespath all 1.0.1-1 [21.1 kB] Get:667 http://deb.debian.org/debian bookworm/main amd64 python3-botocore all 1.29.27+repack-1 [5502 kB] Get:668 http://deb.debian.org/debian bookworm/main amd64 python3-s3transfer all 0.6.0-1 [53.0 kB] Get:669 http://deb.debian.org/debian bookworm/main amd64 python3-boto3 all 1.26.27+dfsg-1 [187 kB] Get:670 http://deb.debian.org/debian bookworm/main amd64 python3-bcrypt amd64 3.2.0-1+b2 [33.5 kB] Get:671 http://deb.debian.org/debian bookworm/main amd64 python3-nacl amd64 1.5.0-2 [59.3 kB] Get:672 http://deb.debian.org/debian bookworm/main amd64 python3-paramiko all 2.10.4-1 [135 kB] Get:673 http://deb.debian.org/debian bookworm/main amd64 python3-smart-open all 5.2.1-5 [87.9 kB] Get:674 http://deb.debian.org/debian bookworm/main amd64 python3-stopit all 1.1.2-2 [12.6 kB] Get:675 http://deb.debian.org/debian bookworm/main amd64 python3-tabulate all 0.8.9-1 [35.2 kB] Get:676 http://deb.debian.org/debian bookworm/main amd64 python3-toposort all 1.7-1 [7648 B] Get:677 http://deb.debian.org/debian bookworm/main amd64 python3-wrapt amd64 1.14.1-2+b1 [42.3 kB] Get:678 http://deb.debian.org/debian bookworm/main amd64 snakemake all 7.12.1-1 [285 kB] Get:679 http://deb.debian.org/debian bookworm/main amd64 trim-galore all 0.6.7-1 [17.8 MB] Get:680 http://deb.debian.org/debian bookworm/main amd64 pigx-rnaseq all 0.1.0-1.1 [61.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 636 MB in 3s (220 MB/s) Selecting previously unselected package pigz. (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 ... 8603 files and directories currently installed.) Preparing to unpack .../archives/pigz_2.6-1_amd64.deb ... Unpacking pigz (2.6-1) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../libssl3_3.0.7-1_amd64.deb ... Unpacking libssl3:amd64 (3.0.7-1) ... Selecting previously unselected package libpython3.10-minimal:amd64. Preparing to unpack .../libpython3.10-minimal_3.10.9-1_amd64.deb ... Unpacking libpython3.10-minimal:amd64 (3.10.9-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package python3.10-minimal. Preparing to unpack .../python3.10-minimal_3.10.9-1_amd64.deb ... Unpacking python3.10-minimal (3.10.9-1) ... Setting up libssl3:amd64 (3.0.7-1) ... Setting up libpython3.10-minimal:amd64 (3.10.9-1) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.10-minimal (3.10.9-1) ... 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 ... 8929 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.10.6-1_amd64.deb ... Unpacking python3-minimal (3.10.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_8.0.0_all.deb ... Unpacking media-types (8.0.0) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../02-libmpdec3_2.5.1-2_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-2) ... 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Setting up libyaml-0-2:amd64 (0.2.5-1) ... Setting up libglib2.0-0:amd64 (2.74.2-1) ... No schema files found: doing nothing. Setting up libjs-sifter.js (0.6.0+dfsg-3) ... Setting up libboost-iostreams1.74.0:amd64 (1.74.0-17+b2) ... Setting up libglvnd0:amd64 (1.5.0-1) ... Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-2) ... Setting up libboost-program-options1.74.0:amd64 (1.74.0-17+b2) ... Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libmjson-java (1.4.0-3) ... Setting up fonts-lyx (2.3.6.1-1) ... Setting up unzip (6.0-27) ... Setting up libbrotli1:amd64 (1.0.9-2+b5) ... Setting up libsqlite3-0:amd64 (3.40.0-1) ... Setting up libisal2 (2.30.0-5) ... Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Setting up binutils-common:amd64 (2.39.50.20221208-5) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libsensors-config (1:3.6.0-7.1) ... Setting up node-html5shiv (3.7.3+dfsg-5) ... Setting up libnghttp2-14:amd64 (1.51.0-1) ... Setting up libngs-sdk2:amd64 (2.11.2-4) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up linux-libc-dev:amd64 (6.0.12-1) ... Setting up libctf-nobfd0:amd64 (2.39.50.20221208-5) ... Setting up libqhull-r8.0:amd64 (2020.2-5) ... Setting up libboost-filesystem1.74.0:amd64 (1.74.0-17+b2) ... Setting up libnlopt0:amd64 (2.7.1-4+b3) ... Setting up libjs-microplugin.js (0.0.3+dfsg-1.1) ... Setting up libfindbin-libs-perl (3.0.1-2) ... Setting up libjemalloc2:amd64 (5.2.1-5) ... Setting up libgomp1:amd64 (12.2.0-10) ... Setting up libjs-modernizr (2.6.2+ds1-5) ... Setting up libjbig0:amd64 (2.1-6.1) ... Setting up libaec0:amd64 (1.0.6-1+b1) ... Setting up python-babel-localedata (2.10.3-1) ... Setting up libjansson4:amd64 (2.14-2) ... Setting up libsnappy1v5:amd64 (1.1.9-2) ... Setting up libkrb5support0:amd64 (1.20.1-1) ... Setting up libjs-es5-shim (4.6.7-2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up liberror-perl (0.17029-2) ... Setting up unicode-data (15.0.0-1) ... Setting up fastp (0.23.2+dfsg-2+b1) ... Setting up libasound2-data (1.2.8-1) ... Setting up libsis-base-jni (18.09~pre1+git20180928.45fbd31+dfsg-3) ... Setting up libxsimd-dev:amd64 (8.1.0-7) ... Setting up zip (3.0-12) ... Setting up librhino-java (1.7.7.2-3) ... Setting up libz3-4:amd64 (4.8.12-3) ... Setting up libblas3:amd64 (3.10.1-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libuv1:amd64 (1.44.2-1) ... Setting up rpcsvc-proto (1.4.3-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.2-1+b1) ... Setting up libx11-data (2:1.8.1-2) ... Setting up libmpfr6:amd64 (4.1.0-3) ... Setting up libnspr4:amd64 (2:4.35-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libapache-pom-java (25-2) ... Setting up libavahi-common-data:amd64 (0.8-6+b1) ... Setting up libncurses6:amd64 (6.3+20220423-2) ... Setting up libdbus-1-3:amd64 (1.14.4-1) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libquadmath0:amd64 (12.2.0-10) ... Setting up libimagequant0:amd64 (2.17.0-1) ... Setting up libjs-d3 (3.5.17-4) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libhwloc15:amd64 (2.9.0-1) ... Setting up libmpc3:amd64 (1.2.1-2) ... Setting up libatomic1:amd64 (12.2.0-10) ... Setting up libtcl8.6:amd64 (8.6.13+dfsg-1) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libjbzip2-java (0.9.1-8) ... Setting up libngs-sdk-dev:amd64 (2.11.2-4) ... Setting up libpcsclite1:amd64 (1.9.9-1) ... Setting up libsensors5:amd64 (1:3.6.0-7.1) ... Setting up libncursesw6:amd64 (6.3+20220423-2) ... Setting up libk5crypto3:amd64 (1.20.1-1) ... Setting up libglapi-mesa:amd64 (22.2.4-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up libgfortran5:amd64 (12.2.0-10) ... Setting up libwebp7:amd64 (1.2.2-2+b2) ... Setting up libubsan1:amd64 (12.2.0-10) ... Setting up libgif7:amd64 (5.2.1-2.5) ... Setting up libjs-highlight.js (9.18.5+dfsg1-2) ... Setting up sensible-utils (0.0.17) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up pigz (2.6-1) ... Setting up at-spi2-common (2.46.0-4) ... Setting up libcrypt-dev:amd64 (1:4.4.33-1) ... Setting up libasan8:amd64 (12.2.0-10) ... Setting up liblua5.3-0:amd64 (5.3.6-2) ... Setting up libjson-perl (4.10000-1) ... Setting up libasound2:amd64 (1.2.8-1) ... Setting up libmpdec3:amd64 (2.5.1-2) ... Setting up libopenjp2-7:amd64 (2.5.0-1) ... Setting up git-man (1:2.35.1-1) ... Setting up libthai-data (0.1.29-1) ... Setting up libgirepository-1.0-1:amd64 (1.74.0-2) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up node-bootstrap-sass (3.4.3-2) ... Setting up libcommons-math3-java (3.6.1-3) ... Setting up sgml-base (1.31) ... Setting up libjs-prettify (2015.12.04+dfsg-1.1) ... Setting up libgtk2.0-common (2.24.33-2) ... Setting up libatk1.0-0:amd64 (2.46.0-4) ... Setting up libkrb5-3:amd64 (1.20.1-1) ... Setting up libtiff5:amd64 (4.4.0-6) ... Setting up libpython3.11-minimal:amd64 (3.11.1-1) ... Setting up libjs-bootstrap4 (4.6.1+dfsg1-4) ... Setting up pandoc-data (2.17.1.1-1.1) ... Setting up libtsan2:amd64 (12.2.0-10) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libngs-java:amd64 (2.11.2-4) ... Setting up libbinutils:amd64 (2.39.50.20221208-5) ... Setting up libisl23:amd64 (0.25-1) ... Setting up libc-dev-bin (2.36-6) ... Setting up python-matplotlib-data (3.5.2-4) ... Setting up openssl (3.0.7-1) ... Setting up libwebpmux3:amd64 (1.2.2-2+b2) ... Setting up libbsd0:amd64 (0.11.7-1) ... Setting up node-normalize.css (8.0.1-5) ... Setting up libdrm-common (2.4.114-1) ... Setting up libelf1:amd64 (0.188-1) ... Setting up libsnappy-jni (1.1.8.3-1) ... Setting up readline-common (8.2-1.2) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.1+b2) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libcc1-0:amd64 (12.2.0-10) ... Setting up libargs4j-java (2.33-2) ... Setting up liblsan0:amd64 (12.2.0-10) ... Setting up libsz2:amd64 (1.0.6-1+b1) ... Setting up libjs-bootstrap (3.4.1+dfsg-2) ... Setting up libitm1:amd64 (12.2.0-10) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-2) ... Setting up libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... Setting up libjs-jquery-datatables-extensions (0.0+git20150910.28fd64e+dfsg-5) ... Setting up libctf0:amd64 (2.39.50.20221208-5) ... Setting up python3.11-minimal (3.11.1-1) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.10.1-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up cpp-12 (12.2.0-10) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up libopenblas0-pthread:amd64 (0.3.21+ds-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/x86_64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-x86_64-linux-gnu) in auto mode Setting up libxcb-xfixes0:amd64 (1.15-1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up libxcb-glx0:amd64 (1.15-1) ... Setting up libwebpdemux2:amd64 (1.2.2-2+b2) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libreadline8:amd64 (8.2-1.2) ... Setting up libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... Setting up libcommons-parent-java (43-1) ... Setting up libavahi-common3:amd64 (0.8-6+b1) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libnss3:amd64 (2:3.85-1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-2+b1) ... Setting up libjs-jquery-datatables (1.11.5+dfsg-2) ... Setting up libtbbbind-2-5:amd64 (2021.7.0-1) ... Setting up libxcb-present0:amd64 (1.15-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up coinor-libcoinutils3v5:amd64 (2.11.4+repack1-2) ... Setting up libthai0:amd64 (0.1.29-1) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 127 added, 0 removed; done. Setting up libgprofng0:amd64 (2.39.50.20221208-5) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up pandoc (2.17.1.1-1.1) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-3) ... Setting up libxcb-sync1:amd64 (1.15-1) ... Setting up libjs-jquery-metadata (12-4) ... Setting up libgcc-12-dev:amd64 (12.2.0-10) ... Setting up shared-mime-info (2.2-1) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-1) ... Setting up ucf (3.0043) ... Setting up gir1.2-glib-2.0:amd64 (1.74.0-2) ... Setting up libjs-sphinxdoc (5.3.0-2) ... Setting up coinor-libosi1v5:amd64 (0.108.6+repack1-2) ... Setting up libcommons-lang3-java (3.12.0-2) ... Setting up libxcb-dri2-0:amd64 (1.15-1) ... Setting up libdrm2:amd64 (2.4.114-1) ... Setting up libjs-jquery-tablesorter (1:2.31.3+dfsg1-3) ... Setting up libopenblas0:amd64 (0.3.21+ds-3) ... Setting up cpp (4:12.2.0-1) ... Setting up xml-core (0.18+nmu1) ... Setting up libllvm15:amd64 (1:15.0.6-3) ... Setting up libxslt1.1:amd64 (1.1.35-1) ... Setting up libcurl4:amd64 (7.86.0-2) ... Setting up libx11-6:amd64 (2:1.8.1-2) ... Setting up libharfbuzz0b:amd64 (5.2.0-2+b1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up ca-certificates-java (20220719) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:EC-ACC.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.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:Network_Solutions_Certificate_Authority.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem done. Setting up libxcomposite1:amd64 (1:0.4.5-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libavahi-client3:amd64 (0.8-6+b1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.3-11) ... Setting up binutils-x86-64-linux-gnu (2.39.50.20221208-5) ... Setting up libdrm-amdgpu1:amd64 (2.4.114-1) ... Setting up libopenblas-pthread-dev:amd64 (0.3.21+ds-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/x86_64-linux-gnu/libopenblas.so (libopenblas.so-x86_64-linux-gnu) in auto mode Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libxcb-dri3-0:amd64 (1.15-1) ... Setting up libpaper1:amd64 (1.1.28+b1) ... Creating config file /etc/papersize with new version Setting up gtk-update-icon-cache (3.24.35-3) ... Setting up libx11-xcb1:amd64 (2:1.8.1-2) ... Setting up libdrm-nouveau2:amd64 (2.4.114-1) ... Setting up libxdamage1:amd64 (1:1.1.5-2) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libcommons-compress-java (1.22-1) ... Setting up libcommons-io-java (2.11.0-2) ... Setting up libdrm-radeon1:amd64 (2.4.114-1) ... Setting up fontconfig-config (2.13.1-4.5) ... Setting up libgl1-mesa-dri:amd64 (22.2.4-1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libcurl3-gnutls:amd64 (7.86.0-2) ... Setting up libtbb12:amd64 (2021.7.0-1) ... Setting up libbigwig0:amd64 (0.4.7+dfsg-3) ... Setting up binutils (2.39.50.20221208-5) ... Setting up libpaper-utils (1.1.28+b1) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up libopenblas-dev:amd64 (0.3.21+ds-3) ... Setting up libtirpc-dev:amd64 (1.3.3+ds-1) ... Setting up adwaita-icon-theme (43-1) ... 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 gcc-12 (12.2.0-10) ... Setting up libxfixes3:amd64 (1:6.0.0-2) ... Setting up coinor-libclp1:amd64 (1.17.6-3) ... Setting up libraqm0:amd64 (0.7.0-4) ... Setting up sphinx-common (5.3.0-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3) ... Setting up libxrandr2:amd64 (2:1.5.2-2+b1) ... Setting up git (1:2.35.1-1) ... Setting up libxt6:amd64 (1:1.2.1-1) ... Setting up libcups2:amd64 (2.4.2-1+b2) ... Setting up libsis-base-java (18.09~pre1+git20180928.45fbd31+dfsg-3) ... Setting up libhdf5-103-1:amd64 (1.10.8+repack-4) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libsis-jhdf5-jni (19.04.1+dfsg-2) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.5) ... Setting up coinor-libcgl1:amd64 (0.60.3+repack1-4) ... Setting up libstaden-read14:amd64 (1.14.14+dfsg-3) ... Setting up libhtsjdk-java (3.0.2+dfsg-1) ... Setting up coinor-libcbc3:amd64 (2.10.8+ds1-1) ... Setting up fontconfig (2.13.1-4.5) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1) ... Setting up libhts3:amd64 (1.16+ds-3) ... Setting up libglx-mesa0:amd64 (22.2.4-1) ... Setting up libxi6:amd64 (2:1.8-1+b1) ... Setting up libglx0:amd64 (1.5.0-1) ... Setting up libsis-jhdf5-java (19.04.1+dfsg-2) ... Setting up libxtst6:amd64 (2:1.2.3-1.1) ... Setting up libpython3.11-stdlib:amd64 (3.11.1-1) ... Setting up libtk8.6:amd64 (8.6.13-1) ... Setting up libxcursor1:amd64 (1:1.2.1-1) ... Setting up libpango-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libcairo2:amd64 (1.16.0-7) ... Setting up gcc (4:12.2.0-1) ... Setting up samtools (1.16.1-1) ... Setting up salmon (1.9.0+ds1-1) ... Setting up libpython3.10-stdlib:amd64 (3.10.9-1) ... Setting up libgl1:amd64 (1.5.0-1) ... Setting up coinor-cbc (2.10.8+ds1-1) ... Setting up megadepth (1.2.0-4) ... Setting up openjdk-17-jre-headless:amd64 (17.0.5+8-2) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libc6-dev:amd64 (2.36-6) ... Setting up libpangoft2-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libpython3-stdlib:amd64 (3.10.6-1) ... Setting up python3.11 (3.11.1-1) ... Setting up libpython3.10:amd64 (3.10.9-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Setting up python3.10 (3.10.9-1) ... Setting up libpython3.11:amd64 (3.11.1-1) ... Setting up default-jre-headless (2:1.17-73) ... Setting up libstdc++-12-dev:amd64 (12.2.0-10) ... Setting up libgtk2.0-0:amd64 (2.24.33-2) ... Setting up blt (2.5.3+dfsg-4.1) ... Setting up python3 (3.10.6-1) ... Setting up python3-markupsafe (2.1.1-1+b1) ... Setting up python3-psutil (5.9.4-1) ... Setting up python3-multidict (6.0.2-1+b1) ... Setting up python3-tz (2022.6-1) ... Setting up python3-frozenlist (1.3.3-1) ... Setting up python3-aiosignal (1.3.1-1) ... Setting up python3-ratelimiter (1.2.0.post0-3) ... Setting up python3-async-timeout (4.0.2-1) ... Setting up python3-six (1.16.0-4) ... Setting up python3-simplejson (3.17.6-1+b2) ... Setting up python3-isodate (0.6.1-1) ... Setting up python3-roman (3.3-3) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-jinja2 (3.0.3-2) ... Setting up libexpat1-dev:amd64 (2.5.0-1) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up python3-humanfriendly (10.0-3) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-snowballstemmer (2.2.0-2) ... Setting up python3-avro (1.11.1+dfsg-1) ... Setting up python3-jmespath (1.0.1-1) ... Setting up python3-brotli (1.0.9-2+b5) ... Setting up python3-gi (3.42.2-3) ... Setting up python3-cycler (0.11.0-1) ... Setting up r-base-core (4.2.2.20221110-1) ... Creating config file /etc/R/Renviron with new version Setting up python3-connection-pool (0.0.3-2) ... Setting up r-cran-crayon (1.5.2-1) ... Setting up r-cran-squarem (2021.1-1) ... Setting up python3-kiwisolver (1.3.2-1+b3) ... Setting up r-cran-gtable (0.3.1+dfsg-1) ... Setting up python3-idna (3.3-1) ... Setting up r-cran-labeling (0.4.2-1) ... Setting up python3-wrapt (1.14.1-2+b1) ... Setting up python3-markdown (3.4.1-2) ... Setting up r-cran-sourcetools (0.1.7-3) ... Setting up r-cran-futile.options (1.0.1-3) ... Setting up python3-typing-extensions (4.3.0-2) ... Setting up r-cran-lattice (0.20-45-3) ... Setting up r-cran-ps (1.7.2-1) ... Setting up r-cran-nlme (3.1.160-1) ... Setting up r-cran-farver (2.1.1-1) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up r-cran-formatr (1.12-1) ... Setting up python3-fastjsonschema (2.15.1-3) ... Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Setting up r-cran-zip (2.2.2-1) ... Setting up r-cran-xml (3.99-0.13-1) ... Setting up python3-pyrsistent:amd64 (0.18.1-1+b2) ... Setting up hisat2 (2.2.1-4) ... Setting up r-cran-viridislite (0.4.1-1) ... Setting up r-cran-locfit (1.5-9.6-1) ... Setting up python3-lxml:amd64 (4.9.1-1+b2) ... Setting up python3-traitlets (5.5.0-1) ... Setting up python3-portalocker (2.2.1-1) ... Setting up r-cran-sparsem (1.81-1) ... Setting up r-cran-statmod (1.4.37-1) ... Setting up r-cran-nnet (7.3-18-1) ... Setting up python3-dateutil (2.8.2-1) ... Setting up python3-py2bit (0.3.1-1+b1) ... Setting up r-cran-lazyeval (0.2.2-1+b1) ... Setting up python3-datrie:amd64 (0.8.2-4) ... Setting up r-cran-clipr (0.8.0-1) ... Setting up r-cran-polynom (1.4-1+dfsg-1) ... Setting up r-cran-commonmark (1.8.1-1) ... Setting up r-cran-proxy (0.4-27-1) ... Setting up r-cran-r6 (2.5.1-1) ... Setting up r-cran-pkgkitten (0.2.2-2) ... Setting up python3-mpmath (1.2.1-2) ... Setting up r-cran-numderiv (2016.8-1.1-3) ... Setting up python3-lib2to3 (3.10.8-1) ... Setting up python3-coloredlogs (15.0.1-1) ... Setting up python3-appdirs (1.4.4-3) ... Setting up python3-yarl (1.8.1-1+b1) ... Setting up python3-smmap (5.0.0-1) ... Setting up r-cran-magrittr (2.0.3-1) ... Setting up r-cran-rappdirs (0.3.3-1) ... Setting up r-bioc-genomeinfodbdata (1.2.9-1) ... Setting up python3-cffi-backend:amd64 (1.15.1-4) ... Setting up python3-imagesize (1.4.1-1) ... Setting up g++-12 (12.2.0-10) ... Setting up python3-blinker (1.5-1) ... Setting up python3-commonmark (0.9.1-4) ... Setting up r-cran-littler (0.3.17-1) ... Setting up python3-pkg-resources (65.5.0-1) ... Setting up python3-distutils (3.10.8-1) ... Setting up python3-toposort (1.7-1) ... Setting up python3-configargparse (1.5.3-1) ... Setting up python3-sympy (1.11.1-1) ... Setting up r-cran-fs (1.5.2+dfsg-1) ... Setting up r-cran-rcpp (1.0.9-1) ... Setting up python3-attr (22.1.0-1) ... Setting up r-cran-curl (4.3.3+dfsg-1) ... Setting up r-cran-codetools (0.2-18-1) ... Setting up r-cran-brio (1.1.3-1+b1) ... Setting up r-cran-boot (1.3-28.1-1) ... Setting up r-cran-diffobj (0.3.5-1+b1) ... Setting up r-cran-rematch (1.0.1-3) ... Setting up r-bioc-biocgenerics (0.44.0-2) ... Setting up r-cran-rlang (1.0.6-1) ... Setting up libboost1.74-dev:amd64 (1.74.0-17+b2) ... Setting up r-cran-matrixstats (0.63.0-1) ... Setting up python3-pysam (0.20.0+ds-1) ... Setting up r-cran-listenv (0.8.0+dfsg-1) ... Setting up littler (0.3.17-1) ... Setting up python3-setuptools (65.5.0-1) ... Setting up r-bioc-matrixgenerics (1.10.0-1) ... Setting up python3-jwt (2.4.0-2) ... Setting up r-cran-xfun (0.35+dfsg-1) ... Setting up python3-babel (2.10.3-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up r-cran-sys (3.4.1-1) ... Setting up python3-deeptoolsintervals (0.1.9-3+b5) ... Setting up python3-colorama (0.4.6-2) ... Setting up python3-lz4 (4.0.2+dfsg-1+b1) ... Setting up r-cran-plogr (0.2.0-3) ... Setting up r-cran-withr (2.5.0-1) ... Setting up r-cran-backports (1.4.1-1) ... Setting up python3-pbr (5.10.0-2) ... Setting up python3-pulp (2.6.0+dfsg-1) ... Setting up r-cran-processx (3.8.0-1) ... Setting up python3-charset-normalizer (3.0.1-2) ... Setting up r-cran-mime (0.12-1+b1) ... Setting up r-cran-praise (1.0.0-4) ... Setting up python3-alabaster (0.7.12-1) ... Setting up r-cran-generics (0.1.3-1) ... Setting up python3-unicodedata2 (14.0.0+ds2-1+b1) ... Setting up openjdk-17-jre:amd64 (17.0.5+8-2) ... Setting up r-cran-base64enc (0.1-3-3) ... Setting up r-cran-iterators (1.0.14-1) ... Setting up r-cran-abind (1.4-5-2) ... Setting up r-cran-digest (0.6.31-1) ... Setting up r-cran-yaml (2.3.6-1) ... Setting up python3-tenacity (8.0.1-1) ... Setting up python3-bcrypt (3.2.0-1+b2) ... Setting up python3-ply (3.11-5) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up python3-tqdm (4.64.0-2) ... Setting up r-cran-gower (1.0.0-1) ... Setting up r-cran-evaluate (0.18-1) ... Setting up r-cran-dbi (1.1.3-1) ... Setting up r-cran-timedate (4021.107-1) ... Setting up python3-ruamel.yaml.clib:amd64 (0.2.7-1+b1) ... Setting up r-cran-highr (0.9+dfsg-1) ... Setting up r-cran-foreach (1.5.2-1) ... Setting up r-cran-prettyunits (1.1.1-2) ... Setting up r-cran-fansi (1.0.3-1) ... Setting up r-cran-cardata (3.0.5-1) ... Setting up python3-gast (0.5.2-2) ... Setting up python3-aiohttp (3.8.3-1+b1) ... Setting up r-cran-mass (7.3-58.1-1) ... Setting up python3-tabulate (0.8.9-1) ... Setting up python3-all (3.10.6-1) ... Setting up python3-yaml (6.0-3+b1) ... Setting up python3-tk:amd64 (3.10.8-1) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up python3-gitdb (4.0.9-2) ... Setting up default-jre (2:1.17-73) ... Setting up python3-uamqp (1.5.3-1+b3) ... Setting up python3-click (8.1.3-1) ... Setting up r-cran-data.table (1.14.6+dfsg-1) ... Setting up r-cran-glue (1.6.2-1) ... Setting up r-cran-foreign (0.8.84-1) ... Setting up r-cran-bit (4.0.5-1) ... Setting up python3-networkx (2.6.3-1) ... Setting up r-cran-xtable (1:1.8-4-2) ... Setting up r-cran-cli (3.4.1-1) ... Setting up r-cran-lifecycle (1.0.3+dfsg-1) ... Setting up r-cran-bitops (1.0-7-1) ... Setting up r-cran-rprojroot (2.0.3-1) ... Setting up r-cran-bit64 (4.0.5-1) ... Setting up r-cran-progressr (0.11.0-1) ... Setting up r-bioc-zlibbioc (1.44.0+dfsg-1) ... Setting up python3-fs (2.4.16-2) ... Setting up r-cran-askpass (1.1-2) ... Setting up r-cran-fastmap (1.1.0-1) ... Setting up python3-beniget (0.4.1-3) ... Setting up r-cran-png (0.1-8-1) ... Setting up r-bioc-biobase (2.58.0-2) ... Setting up r-cran-jsonlite (1.8.4+dfsg-1) ... Setting up r-cran-corrplot (0.92-1) ... Setting up r-cran-pkgconfig (2.0.3-2) ... Setting up python3-pygments (2.13.0+dfsg-1) ... Setting up python3-xopen (1.2.1-4) ... Setting up r-cran-sp (1:1.5-1+dfsg-1) ... Setting up r-cran-utf8 (1.2.2-1) ... Setting up python3-packaging (21.3-1.1) ... Setting up r-cran-colorspace (2.0-3+dfsg-1) ... Setting up r-cran-parallelly (1.32.1-1) ... Setting up python3-chardet (4.0.0-2) ... Setting up r-cran-stringi (1.7.8-1+b1) ... Setting up python3-jsonschema (4.9.1-3) ... Setting up r-cran-cpp11 (0.4.3-1) ... Setting up r-cran-plyr (1.8.8-1) ... Setting up r-cran-rcolorbrewer (1.1-3-1) ... Setting up python3-cryptography (3.4.8-2) ... Setting up r-bioc-s4vectors (0.36.1-1) ... Setting up r-cran-isoband (0.2.6-1) ... Setting up python3-git (3.1.27-1) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up python3-requests (2.28.1+dfsg-1) ... Setting up r-cran-gridextra (2.3-3) ... Setting up r-cran-purrr (0.3.5-1) ... Setting up libpython3.10-dev:amd64 (3.10.9-1) ... Setting up r-cran-later (1.3.0+dfsg-1+b1) ... Setting up r-cran-matrix (1.5-1-1) ... Setting up python3-numpy (1:1.21.5-2) ... Setting up python3-colormath (3.0.0-4) ... Setting up python3-pybigwig (0.3.18+dfsg-1+b2) ... Setting up r-cran-tinytex (0.42-1) ... Setting up r-bioc-tximport (1.26.0+dfsg-1) ... Setting up r-cran-kernsmooth (2.23-20-1) ... Setting up python3-ruamel.yaml (0.17.16-1) ... Setting up r-cran-mgcv (1.8-41-1) ... Setting up python3.10-dev (3.10.9-1) ... Setting up g++ (4:12.2.0-1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up python3-adal (1.2.7-2) ... Setting up python3-stopit (1.1.2-2) ... Setting up r-cran-cachem (1.0.6-1+b1) ... Setting up r-cran-rcpparmadillo (0.11.4.2.1-1) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up r-bioc-iranges (2.32.0-1) ... Setting up r-cran-rjson (0.2.21-1) ... Setting up r-cran-tzdb (0.3.0-1) ... Setting up python3-future (0.18.2-6) ... update-alternatives: using /usr/bin/python3-futurize to provide /usr/bin/futurize (futurize) in auto mode update-alternatives: using /usr/bin/python3-pasteurize to provide /usr/bin/pasteurize (pasteurize) in auto mode Setting up python3-lzstring (1.0.4-2) ... Setting up r-cran-globals (0.16.2-1) ... Setting up r-cran-rcurl (1.98-1.9+dfsg-1) ... Setting up r-cran-maptools (1:1.1-5+dfsg-1) ... Setting up r-cran-restfulr (0.0.15-1) ... Setting up python3-htseq (1.99.2-1+b2) ... Setting up r-cran-vctrs (0.5.1-1) ... Setting up python3-jupyter-core (4.12.0-1) ... Setting up python3-nacl (1.5.0-2) ... Setting up r-bioc-delayedarray (0.24.0+dfsg-1) ... Setting up r-cran-rcppeigen (0.3.3.9.3-1) ... Setting up python3-dnaio (0.9.1-1+b1) ... Setting up r-cran-pillar (1.8.1+dfsg-1) ... Setting up r-cran-bh (1.74.0-2) ... Setting up r-cran-ellipsis (0.3.2-2) ... Setting up r-cran-minqa (1.2.5-1) ... Setting up r-cran-openssl (2.0.5+dfsg-1) ... Setting up libpython3-dev:amd64 (3.10.6-1) ... Setting up r-cran-stringr (1.4.1-1) ... Setting up r-cran-class (7.3-20-1) ... Setting up r-bioc-biocparallel (1.32.4-1) ... Setting up r-cran-modelmetrics (1.2.2.2-1+b1) ... Setting up r-cran-callr (3.7.2-1) ... Setting up python3-spectra (0.0.11-4) ... Setting up r-cran-openxlsx (4.2.5.1-1) ... Setting up python3-rich (12.6.0-1) ... Setting up r-cran-matrixmodels (0.5-1-1) ... Setting up r-bioc-rhtslib (2.0.0+dfsg-1) ... Setting up fastqc (0.11.9+dfsg-6) ... Setting up r-cran-desc (1.4.2-1) ... Setting up r-cran-munsell (0.5.0-2) ... Setting up r-cran-tibble (3.1.8+dfsg-1) ... Setting up python3-marshmallow (3.18.0-1) ... Setting up python3-msal (1.20.0-1) ... Setting up r-cran-proc (1.18.0-1+b1) ... Setting up python3-msal-extensions (1.0.0-2) ... Setting up r-cran-survival (3.4-0-1) ... Setting up python3-nbformat (5.5.0-1) ... Setting up r-bioc-biocio (1.8.0+dfsg-1) ... Setting up r-cran-future (1.29.0+dfsg-1) ... Setting up r-cran-forcats (0.5.2-1) ... Setting up r-cran-tidyselect (1.2.0+dfsg-1) ... Setting up r-cran-reshape2 (1.4.4-2) ... Setting up python3-strictyaml (1.6.1-2) ... Setting up r-cran-future.apply (1.10.0+dfsg-1) ... Setting up python3-oauthlib (3.2.1-2) ... Setting up python3-cutadapt (4.1-1+b1) ... Setting up r-bioc-genomeinfodb (1.34.4-1) ... Setting up r-cran-timechange (0.1.1-3) ... Setting up libpython3-all-dev:amd64 (3.10.6-1) ... Setting up r-cran-httr (1.4.4+dfsg-1) ... Setting up python3-botocore (1.29.27+repack-1) ... Setting up python3-dev (3.10.6-1) ... Setting up r-cran-hms (1.1.2-1) ... Setting up r-cran-scales (1.2.1-1) ... Setting up r-cran-memoise (2.0.1-1) ... Setting up r-cran-lava (1.7.0+dfsg-1) ... Setting up r-cran-promises (1.2.0.1+dfsg-1) ... Setting up r-cran-e1071 (1.7-12-1) ... Setting up r-cran-blob (1.2.3-1) ... Setting up python3-plotly (5.4.1+dfsg-1) ... Setting up r-cran-htmltools (0.5.4-1) ... Setting up r-bioc-xvector (0.38.0-1) ... Setting up r-cran-knitr (1.41+dfsg-1) ... Setting up r-cran-hardhat (1.2.0+dfsg-1) ... Setting up r-cran-sass (0.4.4+dfsg-1) ... Setting up r-cran-dplyr (1.0.10-1) ... Setting up python3-paramiko (2.10.4-1) ... Setting up r-cran-rsqlite (2.2.19-1) ... Setting up r-cran-progress (1.2.2-2) ... Setting up python3-requests-oauthlib (1.3.0+ds-0.1) ... Setting up python3-all-dev (3.10.6-1) ... Setting up r-cran-pheatmap (1.0.12-2) ... Setting up r-cran-lubridate (1.9.0+dfsg-1) ... Setting up r-cran-pkgload (1.3.2-1) ... Setting up r-cran-vroom (1.6.0-1) ... Setting up r-cran-prodlim (2019.11.13-1+b1) ... Setting up r-cran-ggplot2 (3.3.6+dfsg-1) ... Setting up r-cran-ggsignif (0.6.4-1) ... Setting up r-bioc-genomicranges (1.50.1+dfsg-1) ... Setting up cutadapt (4.1-1) ... Setting up r-cran-cellranger (1.1.0-3) ... Setting up r-cran-httpuv (1.6.6+dfsg-1) ... Setting up r-cran-rematch2 (2.1.2-2) ... Setting up python3-s3transfer (0.6.0-1) ... Setting up r-cran-rpart (4.1.19-1) ... Setting up r-bioc-biostrings (2.66.0-1) ... Setting up r-cran-fontawesome (0.4.0-1) ... Setting up r-cran-ggsci (2.9-3) ... Setting up r-cran-ipred (0.9-13-1) ... Setting up r-cran-jquerylib (0.1.4+dfsg-4) ... Setting up r-cran-htmlwidgets (1.5.4+dfsg-1) ... Setting up python3-msrest (0.6.21-2) ... Setting up r-cran-bslib (0.4.1+dfsg-1) ... Setting up r-cran-readr (2.1.3-1) ... Setting up r-cran-waldo (0.4.0-1) ... Setting up r-cran-ggrepel (0.9.2-1) ... Setting up r-cran-tidyr (1.2.1-1) ... Setting up python3-boto3 (1.26.27+dfsg-1) ... Setting up r-bioc-rsamtools (2.14.0-1) ... Setting up r-cran-recipes (1.0.2+dfsg-1) ... Setting up python3-pythran (0.11.0+ds-7) ... Setting up python3-msrestazure (0.6.4-2) ... Setting up r-cran-cowplot (1.1.1+dfsg-1) ... Setting up r-bioc-summarizedexperiment (1.28.0+dfsg-1) ... Setting up r-cran-readxl (1.4.1-1) ... Setting up python3-scipy (1.8.1-14+b1) ... Setting up trim-galore (0.6.7-1) ... Setting up r-bioc-keggrest (1.38.0+dfsg-1) ... Setting up r-cran-haven (2.5.1-1) ... Setting up r-bioc-annotationdbi (1.60.0-1) ... Setting up r-cran-caret (6.0-93+dfsg-1) ... Setting up r-cran-shiny (1.7.3+dfsg-1) ... Setting up r-cran-shinyjs (2.1.0-1) ... Setting up r-cran-testthat (3.1.6-1) ... Setting up r-cran-miniui (0.1.1.1-3) ... Setting up r-cran-broom (1.0.1+dfsg-1) ... Setting up r-bioc-annotate (1.76.0+dfsg-1) ... Setting up r-cran-rmarkdown (2.18+dfsg-1) ... Setting up r-cran-conquer (1.3.1-1) ... Setting up r-bioc-genomicalignments (1.34.0-1) ... Setting up r-bioc-geneplotter (1.76.0-1) ... Setting up r-cran-crosstalk (1.2.0+dfsg-1) ... Setting up r-cran-rio (0.5.29-1) ... Setting up r-bioc-rtracklayer (1.58.0-1) ... Setting up r-cran-dt (0.26+dfsg-1) ... Setting up r-cran-nloptr (2.0.3-1) ... Setting up r-cran-quantreg (5.94-1) ... Setting up r-bioc-deseq2 (1.38.1+dfsg-1) ... Setting up r-cran-lme4 (1.1-31-1) ... Setting up r-cran-colourpicker (1.2.0+dfsg-1) ... Setting up r-cran-pbkrtest (0.5.1-1) ... Setting up r-cran-car (3.1-1-1) ... Setting up r-cran-rstatix (0.7.1-1) ... Setting up r-cran-plotly (4.10.0+dfsg-1) ... Setting up r-cran-ggpubr (0.4.0-1) ... Setting up r-cran-gprofiler2 (0.2.1+dfsg-1) ... Setting up python3-fonttools (4.37.4-1+b1) ... Setting up python3-pil.imagetk:amd64 (9.2.0-1.1+b1) ... Setting up python3-ufolib2 (0.13.1+dfsg1-1) ... Setting up python3-azure (20221101+git-2) ... Setting up python3-azure-storage (20221101+git-2) ... Setting up python3-pil:amd64 (9.2.0-1.1+b1) ... Setting up python3-matplotlib (3.5.2-4) ... Setting up python3-smart-open (5.2.1-5) ... Setting up multiqc (1.12+dfsg-1) ... Processing triggers for libc-bin (2.36-6) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.17.1+dfsg-3) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.17.1+dfsg-3) ... Setting up snakemake (7.12.1-1) ... Setting up python3-sphinx (5.3.0-2) ... Setting up python3-numpydoc (1.5.0-1) ... Setting up python3-deeptools (3.5.1-2) ... Setting up pigx-rnaseq (0.1.0-1.1) ... Processing triggers for ca-certificates (20211016) ... 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 (20220719) ... done. 3m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-y', 'install', 'pigx-rnaseq'] 3m8.0s INFO: Running scripts post_install 3m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_install_exceptions'] 3m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_install_exceptions'] 3m8.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 3m14.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 3m14.3s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp_yf1hfyn to sid 3m14.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 3m14.3s INFO: Running scripts pre_distupgrade 3m14.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 3m14.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 3m14.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_exceptions'] 3m14.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_exceptions'] 3m14.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 3m14.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 3m14.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_zz_database-server'] 3m14.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_zz_database-server'] 3m14.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 3m14.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 3m14.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'update'] 3m17.2s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [161 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9399 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6949 kB] Fetched 16.5 MB in 2s (7634 kB/s) Reading package lists... 3m17.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'update'] 3m17.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-yf', 'dist-upgrade'] 3m34.1s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: libdrm-intel1 libpciaccess0 libpython3.11-dev python3.11-dev The following packages will be upgraded: diffutils dpkg fonts-glyphicons-halflings git git-man libblas3 libboost-filesystem1.74.0 libboost-iostreams1.74.0 libboost-program-options1.74.0 libboost1.74-dev libcap2 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglx-mesa0 libharfbuzz0b libhdf5-103-1 libjs-bootstrap libkeyutils1 liblapack3 liblzma5 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpython3-all-dev libpython3-dev libpython3-stdlib libsystemd0 libudev1 python3 python3-all python3-all-dev python3-chardet python3-cryptography python3-dev python3-minimal python3-numpy python3-paramiko python3-pkg-resources python3-setuptools r-cran-callr r-cran-ggplot2 r-cran-ggpubr r-cran-matrix r-cran-nlme r-cran-plotly r-cran-stringr tar 48 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 67.3 MB of archives. After this operation, 53.0 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 diffutils amd64 1:3.8-2 [351 kB] Get:2 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.4.0-0.1 [198 kB] Get:3 http://deb.debian.org/debian sid/main amd64 tar amd64 1.34+dfsg-1.1 [836 kB] Get:4 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.21.13 [2412 kB] Get:5 http://deb.debian.org/debian sid/main amd64 python3-all-dev amd64 3.10.6-3 [1076 B] Get:6 http://deb.debian.org/debian sid/main amd64 python3-all amd64 3.10.6-3 [1064 B] Get:7 http://deb.debian.org/debian sid/main amd64 libpython3-all-dev amd64 3.10.6-3 [1072 B] Get:8 http://deb.debian.org/debian sid/main amd64 libpython3-dev amd64 3.10.6-3 [8816 B] Get:9 http://deb.debian.org/debian sid/main amd64 python3-dev amd64 3.10.6-3 [25.4 kB] Get:10 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.10.6-3 [25.5 kB] Get:11 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.10.6-3 [25.2 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libpython3.11-dev amd64 3.11.1-1 [4736 kB] Get:13 http://deb.debian.org/debian sid/main amd64 python3.11-dev amd64 3.11.1-1 [615 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.10.6-3 [8588 B] Get:15 http://deb.debian.org/debian sid/main amd64 libcap2 amd64 1:2.66-2 [26.9 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 252.3-2 [328 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 252.3-2 [106 kB] Get:18 http://deb.debian.org/debian sid/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [162 kB] Get:19 http://deb.debian.org/debian sid/main amd64 git amd64 1:2.39.0-1 [7163 kB] Get:20 http://deb.debian.org/debian sid/main amd64 git-man all 1:2.39.0-1 [2041 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libboost-filesystem1.74.0 amd64 1.74.0-18 [258 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libboost-iostreams1.74.0 amd64 1.74.0-18 [240 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libboost-program-options1.74.0 amd64 1.74.0-18 [328 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libboost1.74-dev amd64 1.74.0-18 [9508 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libpciaccess0 amd64 0.17-2 [51.4 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libdrm-intel1 amd64 2.4.114-1 [63.8 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libglx-mesa0 amd64 22.3.1-1 [148 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libgl1-mesa-dri amd64 22.3.1-1 [7235 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libglapi-mesa amd64 22.3.1-1 [35.6 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libglib2.0-0 amd64 2.74.3-1 [1394 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 5.3.1-2 [1893 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libhdf5-103-1 amd64 1.10.8+repack1-1 [1237 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libjs-bootstrap all 3.4.1+dfsg-3 [172 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:36 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get:40 http://deb.debian.org/debian sid/main amd64 python3-setuptools all 65.5.0-1.1 [519 kB] Get:41 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 65.5.0-1.1 [278 kB] Get:42 http://deb.debian.org/debian sid/main amd64 python3-chardet all 5.1.0+dfsg-1 [110 kB] Get:43 http://deb.debian.org/debian sid/main amd64 python3-cryptography amd64 38.0.4-1 [666 kB] Get:44 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:1.23.5-2 [5706 kB] Get:45 http://deb.debian.org/debian sid/main amd64 python3-paramiko all 2.12.0-2 [133 kB] Get:46 http://deb.debian.org/debian sid/main amd64 r-cran-callr all 3.7.3-1 [426 kB] Get:47 http://deb.debian.org/debian sid/main amd64 r-cran-ggplot2 all 3.4.0+dfsg-1 [3320 kB] Get:48 http://deb.debian.org/debian sid/main amd64 r-cran-ggpubr all 0.5.0-1 [2048 kB] Get:49 http://deb.debian.org/debian sid/main amd64 r-cran-matrix amd64 1.5-3-1 [3822 kB] Get:50 http://deb.debian.org/debian sid/main amd64 r-cran-nlme amd64 3.1.161-1 [2267 kB] Get:51 http://deb.debian.org/debian sid/main amd64 r-cran-plotly all 4.10.1+dfsg-1 [3337 kB] Get:52 http://deb.debian.org/debian sid/main amd64 r-cran-stringr all 1.5.0-1 [295 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 67.3 MB in 1s (126 MB/s) (Reading database ... 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Processing triggers for fontconfig (2.13.1-4.5) ... 3m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-yf', 'dist-upgrade'] 3m34.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 3m34.7s DUMP: 64bb85e9a457b7231c7a56ad14d17b28 - 3m34.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 3m34.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'show', '--no-all-versions', 'pigx-rnaseq'] 3m34.8s DUMP: Package: pigx-rnaseq Version: 0.1.0-1.1 Installed-Size: 176 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-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt (>= 0.15+dfsg-2), 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 Recommends: hisat2, rna-star 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 Section: science Priority: optional Filename: pool/main/p/pigx-rnaseq/pigx-rnaseq_0.1.0-1.1_all.deb Size: 61244 MD5sum: c498fc408d04299178397f05965119df SHA256: 32b5f61115e9fbe559bf2f2dc316127579029f6a4309457906c100956c9ee553 3m34.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'show', '--no-all-versions', 'pigx-rnaseq'] 3m34.8s INFO: apt-cache knows about the following packages: pigx-rnaseq 3m34.8s INFO: Running scripts pre_install 3m34.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_database-server'] 3m34.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_database-server'] 3m34.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_exceptions'] 3m34.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_exceptions'] 3m34.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_extras'] 3m34.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_extras'] 3m34.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture'] 3m34.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture'] 3m34.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m34.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m34.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy'] 3m34.9s 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: 3m34.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy'] 3m34.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy', 'pigx-rnaseq'] 3m35.0s DUMP: pigx-rnaseq: Installed: 0.1.0-1.1 Candidate: 0.1.0-1.1 Version table: *** 0.1.0-1.1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 3m35.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy', 'pigx-rnaseq'] 3m35.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-y', 'install', 'pigx-rnaseq'] 3m35.3s DUMP: Reading package lists... Building dependency tree... Reading state information... pigx-rnaseq is already the newest version (0.1.0-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 3m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-y', 'install', 'pigx-rnaseq'] 3m35.3s INFO: Running scripts post_install 3m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_install_exceptions'] 3m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_install_exceptions'] 3m35.3s INFO: Running scripts post_distupgrade 3m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_base_cleanup'] 3m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_base_cleanup'] 3m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_exceptions'] 3m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_exceptions'] 3m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 3m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 3m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_squeeze-backports'] 3m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_squeeze-backports'] 3m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_zz_backports'] 3m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_distupgrade_zz_backports'] 3m35.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 3m41.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 3m41.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 3m48.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 3m48.0s INFO: Running scripts pre_install 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_database-server'] 3m48.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_database-server'] 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_exceptions'] 3m48.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_exceptions'] 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_extras'] 3m48.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_extras'] 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture'] 3m48.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture'] 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m48.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy'] 3m48.0s 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: 3m48.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy'] 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy', 'pigx-rnaseq'] 3m48.0s DUMP: pigx-rnaseq: Installed: 0.1.0-1.1 Candidate: 0.1.0-1.1 Version table: *** 0.1.0-1.1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 3m48.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-cache', 'policy', 'pigx-rnaseq'] 3m48.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-y', 'install', 'pigx-rnaseq=0.1.0-1.1'] 3m48.4s DUMP: Reading package lists... Building dependency tree... Reading state information... pigx-rnaseq is already the newest version (0.1.0-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 3m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', '-y', 'install', 'pigx-rnaseq=0.1.0-1.1'] 3m48.4s INFO: Running scripts post_install 3m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_install_exceptions'] 3m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_install_exceptions'] 3m48.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 3m55.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 4m4.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', '-ac', '--ignore-obsolete'] 4m16.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', '-ac', '--ignore-obsolete'] 4m16.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 4m16.3s DUMP: 0.15.6 4m16.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 4m16.3s INFO: Running adequate version 0.15.6 now. 4m16.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'pigx-rnaseq'] 4m16.4s 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 4m16.4s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'pigx-rnaseq'] 4m16.4s 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 4m16.4s ERROR: WARN: Running adequate resulted in inadequate tags found: py-file-not-bytecompiled 4m16.4s INFO: Running scripts pre_remove 4m16.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 4m16.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 4m16.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 4m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 4m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 4m35.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 4m35.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 4m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 4m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 4m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 4m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_exceptions'] 4m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/pre_remove_exceptions'] 4m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 4m36.9s DUMP: install ok installed adwaita-icon-theme adwaita-icon-theme 43-1 install ok installed apt apt 2.5.4 install ok installed at-spi2-common at-spi2-common 2.46.0-4 install ok installed base-files base-files 12.3 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2-2+b1 install ok installed binutils binutils 2.39.50.20221208-5 install ok installed binutils-common:amd64 binutils-common 2.39.50.20221208-5 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.39.50.20221208-5 install ok installed blt blt 2.5.3+dfsg-4.1 install ok installed bsdutils bsdutils 1:2.38.1-4 install ok installed ca-certificates ca-certificates 20211016 install ok installed ca-certificates-java ca-certificates-java 20220719 install ok installed coinor-cbc coinor-cbc 2.10.8+ds1-1 install ok installed coinor-libcbc3:amd64 coinor-libcbc3 2.10.8+ds1-1 install ok installed coinor-libcgl1:amd64 coinor-libcgl1 0.60.3+repack1-4 install ok installed coinor-libclp1:amd64 coinor-libclp1 1.17.6-3 install ok installed coinor-libcoinutils3v5:amd64 coinor-libcoinutils3v5 2.11.4+repack1-2 install ok installed coinor-libosi1v5:amd64 coinor-libosi1v5 0.108.6+repack1-2 install ok installed coreutils coreutils 9.1-1 install ok installed cpp cpp 4:12.2.0-1 install ok installed cpp-12 cpp-12 12.2.0-10 install ok installed cutadapt cutadapt 4.1-1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-9 install ok installed debconf debconf 1.5.80 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.4 install ok installed default-jre default-jre 2:1.17-73 install ok installed default-jre-headless default-jre-headless 2:1.17-73 install ok installed diffutils diffutils 1:3.8-2 install ok installed docutils-common docutils-common 0.17.1+dfsg-3 install ok installed dpkg dpkg 1.21.13 install ok installed e2fsprogs e2fsprogs 1.46.6~rc1-1+b1 install ok installed fastp fastp 0.23.2+dfsg-2+b1 install ok installed fastqc fastqc 0.11.9+dfsg-6 install ok installed findutils findutils 4.9.0-3 install ok installed fontconfig fontconfig 2.13.1-4.5 install ok installed fontconfig-config fontconfig-config 2.13.1-4.5 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-2 install ok installed fonts-font-awesome fonts-font-awesome 5.0.10+really4.7.0~dfsg-4.1 install ok installed fonts-glyphicons-halflings fonts-glyphicons-halflings 1.009~3.4.1+dfsg-3 install ok installed fonts-lyx fonts-lyx 2.3.6.1-1 install ok installed fonts-mathjax fonts-mathjax 2.7.9+dfsg-1 install ok installed g++ g++ 4:12.2.0-1 install ok installed g++-12 g++-12 12.2.0-10 install ok installed gcc gcc 4:12.2.0-1 install ok installed gcc-12 gcc-12 12.2.0-10 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-10 install ok installed gir1.2-glib-2.0:amd64 gir1.2-glib-2.0 1.74.0-2 install ok installed git git 1:2.39.0-1 install ok installed git-man git-man 1:2.39.0-1 install ok installed gpgv gpgv 2.2.40-1 install ok installed grep grep 3.8-3 install ok installed gtk-update-icon-cache gtk-update-icon-cache 3.24.35-3 install ok installed gzip gzip 1.12-1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.17-2 install ok installed hisat2 hisat2 2.2.1-4 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed java-common java-common 0.73 install ok installed javascript-common javascript-common 11+nmu1 install ok installed libacl1:amd64 libacl1 2.3.1-2 install ok installed libaec0:amd64 libaec0 1.0.6-1+b1 install ok installed libapache-pom-java libapache-pom-java 25-2 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.4 install ok installed libargs4j-java libargs4j-java 2.33-2 install ok installed libasan8:amd64 libasan8 12.2.0-10 install ok installed libasound2:amd64 libasound2 1.2.8-1 install ok installed libasound2-data libasound2-data 1.2.8-1 install ok installed libatk1.0-0:amd64 libatk1.0-0 2.46.0-4 install ok installed libatomic1:amd64 libatomic1 12.2.0-10 install ok installed libattr1:amd64 libattr1 1:2.5.1-3 install ok installed libaudit-common libaudit-common 1:3.0.7-1.1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1.1+b2 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-6+b1 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-6+b1 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-6+b1 install ok installed libbigwig0:amd64 libbigwig0 0.4.7+dfsg-3 install ok installed libbinutils:amd64 libbinutils 2.39.50.20221208-5 install ok installed libblas3:amd64 libblas3 3.11.0-2 install ok installed libblkid1:amd64 libblkid1 2.38.1-4 install ok installed libboost-dev:amd64 libboost-dev 1.74.0.3 install ok installed libboost-filesystem1.74.0:amd64 libboost-filesystem1.74.0 1.74.0-18 install ok installed libboost-iostreams1.74.0:amd64 libboost-iostreams1.74.0 1.74.0-18 install ok installed libboost-program-options1.74.0:amd64 libboost-program-options1.74.0 1.74.0-18 install ok installed libboost1.74-dev:amd64 libboost1.74-dev 1.74.0-18 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b5 install ok installed libbsd0:amd64 libbsd0 0.11.7-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-6 install ok installed libc-dev-bin libc-dev-bin 2.36-6 install ok installed libc6:amd64 libc6 2.36-6 install ok installed libc6-dev:amd64 libc6-dev 2.36-6 install ok installed libcairo2:amd64 libcairo2 1.16.0-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b2 install ok installed libcap2:amd64 libcap2 1:2.66-2 install ok installed libcc1-0:amd64 libcc1-0 12.2.0-10 install ok installed libcom-err2:amd64 libcom-err2 1.46.6~rc1-1+b1 install ok installed libcommons-compress-java libcommons-compress-java 1.22-1 install ok installed libcommons-io-java libcommons-io-java 2.11.0-2 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang3-java libcommons-lang3-java 3.12.0-2 install ok installed libcommons-logging-java libcommons-logging-java 1.2-3 install ok installed libcommons-math3-java libcommons-math3-java 3.6.1-3 install ok installed libcommons-parent-java libcommons-parent-java 43-1 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.33-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-1 install ok installed libctf-nobfd0:amd64 libctf-nobfd0 2.39.50.20221208-5 install ok installed libctf0:amd64 libctf0 2.39.50.20221208-5 install ok installed libcups2:amd64 libcups2 2.4.2-1+b2 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.86.0-2 install ok installed libcurl4:amd64 libcurl4 7.86.0-2 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-2+b1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.4-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.265 install ok installed libdeflate0:amd64 libdeflate0 1.14-1 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.114-1 install ok installed libdrm-common libdrm-common 2.4.114-1 install ok installed libdrm-intel1:amd64 libdrm-intel1 2.4.114-1 install ok installed libdrm-nouveau2:amd64 libdrm-nouveau2 2.4.114-1 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.114-1 install ok installed libdrm2:amd64 libdrm2 2.4.114-1 install ok installed libedit2:amd64 libedit2 3.1-20221030-2 install ok installed libelf1:amd64 libelf1 0.188-1 install ok installed liberror-perl liberror-perl 0.17029-2 install ok installed libexpat1:amd64 libexpat1 2.5.0-1 install ok installed libexpat1-dev:amd64 libexpat1-dev 2.5.0-1 install ok installed libext2fs2:amd64 libext2fs2 1.46.6~rc1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libfindbin-libs-perl libfindbin-libs-perl 3.0.1-2 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-4.5 install ok installed libfreetype6:amd64 libfreetype6 2.12.1+dfsg-3 install ok installed libfribidi0:amd64 libfribidi0 1.0.8-2.1 install ok installed libgcc-12-dev:amd64 libgcc-12-dev 12.2.0-10 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-10 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgdk-pixbuf-2.0-0:amd64 libgdk-pixbuf-2.0-0 2.42.10+dfsg-1 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.42.10+dfsg-1 install ok installed libgfortran5:amd64 libgfortran5 12.2.0-10 install ok installed libgif7:amd64 libgif7 5.2.1-2.5 install ok installed libgirepository-1.0-1:amd64 libgirepository-1.0-1 1.74.0-2 install ok installed libgl1:amd64 libgl1 1.5.0-1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 22.3.1-1 install ok installed libglapi-mesa:amd64 libglapi-mesa 22.3.1-1 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.74.3-1 install ok installed libglvnd0:amd64 libglvnd0 1.5.0-1 install ok installed libglx-mesa0:amd64 libglx-mesa0 22.3.1-1 install ok installed libglx0:amd64 libglx0 1.5.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.8-4 install ok installed libgomp1:amd64 libgomp1 12.2.0-10 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libgprofng0:amd64 libgprofng0 2.39.50.20221208-5 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-1 install ok installed libgtk2.0-0:amd64 libgtk2.0-0 2.24.33-2 install ok installed libgtk2.0-common libgtk2.0-common 2.24.33-2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 5.3.1-2 install ok installed libhdf5-103-1:amd64 libhdf5-103-1 1.10.8+repack1-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libhts3:amd64 libhts3 1.16+ds-3 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.3.0-4 install ok installed libhtsjdk-java libhtsjdk-java 3.0.2+dfsg-1 install ok installed libhwloc15:amd64 libhwloc15 2.9.0-1 install ok installed libice6:amd64 libice6 2:1.0.10-1 install ok installed libicu72:amd64 libicu72 72.1-3 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libimagequant0:amd64 libimagequant0 2.17.0-1 install ok installed libisal2 libisal2 2.30.0-5 install ok installed libisl23:amd64 libisl23 0.25-1 install ok installed libitm1:amd64 libitm1 12.2.0-10 install ok installed libjansson4:amd64 libjansson4 2.14-2 install ok installed libjbig0:amd64 libjbig0 2.1-6.1 install ok installed libjbzip2-java libjbzip2-java 0.9.1-8 install ok installed libjemalloc2:amd64 libjemalloc2 5.2.1-5 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.2-1+b1 install ok installed libjs-bootstrap libjs-bootstrap 3.4.1+dfsg-3 install ok installed libjs-bootstrap4 libjs-bootstrap4 4.6.1+dfsg1-4 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 9.18.5+dfsg1-2 install ok installed libjs-jquery libjs-jquery 3.6.1+dfsg+~3.5.14-1 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+dfsg1-3 install ok installed libjs-jquery-ui libjs-jquery-ui 1.13.2+dfsg-1 install ok installed libjs-json libjs-json 0~20210531+~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-1.1 install ok installed libjs-modernizr libjs-modernizr 2.6.2+ds1-5 install ok installed libjs-popper.js libjs-popper.js 1.16.1+ds-6 install ok installed libjs-prettify libjs-prettify 2015.12.04+dfsg-1.1 install ok installed libjs-sifter.js libjs-sifter.js 0.6.0+dfsg-3 install ok installed libjs-sphinxdoc libjs-sphinxdoc 5.3.0-2 install ok installed libjs-twitter-bootstrap-datepicker libjs-twitter-bootstrap-datepicker 1.3.1+dfsg1-4.1 install ok installed libjs-underscore libjs-underscore 1.13.4~dfsg+~1.11.4-2 install ok installed libjson-perl libjson-perl 4.10000-1 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-1 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-1 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-1 install ok installed liblapack3:amd64 liblapack3 3.11.0-2 install ok installed liblbfgsb0:amd64 liblbfgsb0 3.0+dfsg.3-11 install ok installed liblcms2-2:amd64 liblcms2-2 2.13.1-1+b1 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-2+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-2 install ok installed libllvm15:amd64 libllvm15 1:15.0.6-3 install ok installed liblsan0:amd64 liblsan0 12.2.0-10 install ok installed liblua5.3-0:amd64 liblua5.3-0 5.3.6-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.0-0.1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmjson-java libmjson-java 1.4.0-3 install ok installed libmount1:amd64 libmount1 2.38.1-4 install ok installed libmpc3:amd64 libmpc3 1.2.1-2 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-2 install ok installed libmpfr6:amd64 libmpfr6 4.1.0-3 install ok installed libncurses6:amd64 libncurses6 6.3+20220423-2 install ok installed libncursesw6:amd64 libncursesw6 6.3+20220423-2 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.51.0-1 install ok installed libngs-java:amd64 libngs-java 2.11.2-4 install ok installed libngs-sdk-dev:amd64 libngs-sdk-dev 2.11.2-4 install ok installed libngs-sdk2:amd64 libngs-sdk2 2.11.2-4 install ok installed libnlopt0:amd64 libnlopt0 2.7.1-4+b3 install ok installed libnsl-dev:amd64 libnsl-dev 1.3.0-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnspr4:amd64 libnspr4 2:4.35-1 install ok installed libnss3:amd64 libnss3 2:3.85-1 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 install ok installed libopenblas-dev:amd64 libopenblas-dev 0.3.21+ds-3 install ok installed libopenblas-pthread-dev:amd64 libopenblas-pthread-dev 0.3.21+ds-3 install ok installed libopenblas0:amd64 libopenblas0 0.3.21+ds-3 install ok installed libopenblas0-pthread:amd64 libopenblas0-pthread 0.3.21+ds-3 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.0-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-5 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-5 install ok installed libpam-runtime libpam-runtime 1.5.2-5 install ok installed libpam0g:amd64 libpam0g 1.5.2-5 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.50.12+ds-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.50.12+ds-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.50.12+ds-1 install ok installed libpaper-utils libpaper-utils 1.1.28+b1 install ok installed libpaper1:amd64 libpaper1 1.1.28+b1 install ok installed libpciaccess0:amd64 libpciaccess0 0.17-2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-3 install ok installed libpcsclite1:amd64 libpcsclite1 1.9.9-1 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-6 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1 install ok installed libpng16-16:amd64 libpng16-16 1.6.39-2 install ok installed libpsl5:amd64 libpsl5 0.21.0-1.2 install ok installed libpython3-all-dev:amd64 libpython3-all-dev 3.10.6-3 install ok installed libpython3-dev:amd64 libpython3-dev 3.10.6-3 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.10.6-3 install ok installed libpython3.10:amd64 libpython3.10 3.10.9-1 install ok installed libpython3.10-dev:amd64 libpython3.10-dev 3.10.9-1 install ok installed libpython3.10-minimal:amd64 libpython3.10-minimal 3.10.9-1 install ok installed libpython3.10-stdlib:amd64 libpython3.10-stdlib 3.10.9-1 install ok installed libpython3.11:amd64 libpython3.11 3.11.1-1 install ok installed libpython3.11-dev:amd64 libpython3.11-dev 3.11.1-1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.1-1 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.1-1 install ok installed libqhull-r8.0:amd64 libqhull-r8.0 2020.2-5 install ok installed libquadmath0:amd64 libquadmath0 12.2.0-10 install ok installed libraqm0:amd64 libraqm0 0.7.0-4 install ok installed libreadline8:amd64 libreadline8 8.2-1.2 install ok installed librhino-java librhino-java 1.7.7.2-3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-10 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-10 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b2 install ok installed libselinux1:amd64 libselinux1 3.4-1+b3 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b3 install ok installed libsensors-config libsensors-config 1:3.6.0-7.1 install ok installed libsensors5:amd64 libsensors5 1:3.6.0-7.1 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsis-base-java libsis-base-java 18.09~pre1+git20180928.45fbd31+dfsg-3 install ok installed libsis-base-jni libsis-base-jni 18.09~pre1+git20180928.45fbd31+dfsg-3 install ok installed libsis-jhdf5-java libsis-jhdf5-java 19.04.1+dfsg-2 install ok installed libsis-jhdf5-jni libsis-jhdf5-jni 19.04.1+dfsg-2 install ok installed libsm6:amd64 libsm6 2:1.2.3-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-4 install ok installed libsnappy-java libsnappy-java 1.1.8.3-1 install ok installed libsnappy-jni libsnappy-jni 1.1.8.3-1 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.1.9-2 install ok installed libsodium23:amd64 libsodium23 1.0.18-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.40.0-1 install ok installed libss2:amd64 libss2 1.46.6~rc1-1+b1 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.7-1 install ok installed libstaden-read14:amd64 libstaden-read14 1.14.14+dfsg-3 install ok installed libstdc++-12-dev:amd64 libstdc++-12-dev 12.2.0-10 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-10 install ok installed libsystemd0:amd64 libsystemd0 252.3-2 install ok installed libsz2:amd64 libsz2 1.0.6-1+b1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtbb12:amd64 libtbb12 2021.7.0-1 install ok installed libtbbbind-2-5:amd64 libtbbbind-2-5 2021.7.0-1 install ok installed libtbbmalloc2:amd64 libtbbmalloc2 2021.7.0-1 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.13+dfsg-1 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libthai-data libthai-data 0.1.29-1 install ok installed libthai0:amd64 libthai0 0.1.29-1 install ok installed libtiff5:amd64 libtiff5 4.4.0-6 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libtirpc-common libtirpc-common 1.3.3+ds-1 install ok installed libtirpc-dev:amd64 libtirpc-dev 1.3.3+ds-1 install ok installed libtirpc3:amd64 libtirpc3 1.3.3+ds-1 install ok installed libtk8.6:amd64 libtk8.6 8.6.13-1 install ok installed libtsan2:amd64 libtsan2 12.2.0-10 install ok installed libubsan1:amd64 libubsan1 12.2.0-10 install ok installed libudev1:amd64 libudev1 252.3-2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-4 install ok installed libuv1:amd64 libuv1 1.44.2-1 install ok installed libwebp7:amd64 libwebp7 1.2.2-2+b2 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.2.2-2+b2 install ok installed libwebpmux3:amd64 libwebpmux3 1.2.2-2+b2 install ok installed libx11-6:amd64 libx11-6 2:1.8.1-2 install ok installed libx11-data libx11-data 2:1.8.1-2 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.8.1-2 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.15-1 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.15-1 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.15-1 install ok installed libxcb-present0:amd64 libxcb-present0 1.15-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.15-1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.15-1 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.15-1 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.15-1 install ok installed libxcb1:amd64 libxcb1 1.15-1 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.5-1 install ok installed libxcursor1:amd64 libxcursor1 1:1.2.1-1 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.5-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-2 install ok installed libxft2:amd64 libxft2 2.3.6-1 install ok installed libxi6:amd64 libxi6 2:1.8-1+b1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-3 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1.1+b2 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.2-2+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1 install ok installed libxshmfence1:amd64 libxshmfence1 1.3-1 install ok installed libxsimd-dev:amd64 libxsimd-dev 8.1.0-7 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.35-1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1 install ok installed libxt6:amd64 libxt6 1:1.2.1-1 install ok installed libxtst6:amd64 libxtst6 2:1.2.3-1.1 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-1+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-1 install ok installed libz3-4:amd64 libz3-4 4.8.12-3 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed linux-libc-dev:amd64 linux-libc-dev 6.0.12-1 install ok installed littler littler 0.3.17-1 install ok installed login login 1:4.13+dfsg1-1 install ok installed logsave logsave 1.46.6~rc1-1+b1 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed media-types media-types 8.0.0 install ok installed megadepth megadepth 1.2.0-4 install ok installed mount mount 2.38.1-4 install ok installed multiqc multiqc 1.12+dfsg-1 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 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 install ok installed openjdk-17-jre:amd64 openjdk-17-jre 17.0.5+8-2 install ok installed openjdk-17-jre-headless:amd64 openjdk-17-jre-headless 17.0.5+8-2 install ok installed openssl openssl 3.0.7-1 install ok installed pandoc pandoc 2.17.1.1-1.1 install ok installed pandoc-data pandoc-data 2.17.1.1-1.1 install ok installed passwd passwd 1:4.13+dfsg1-1 install ok installed perl perl 5.36.0-6 install ok installed perl-base perl-base 5.36.0-6 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-6 install ok installed pigx-rnaseq pigx-rnaseq 0.1.0-1.1 install ok installed pigz pigz 2.6-1 install ok installed python-babel-localedata python-babel-localedata 2.10.3-1 install ok installed python-matplotlib-data python-matplotlib-data 3.5.2-4 install ok installed python3 python3 3.10.6-3 install ok installed python3-adal python3-adal 1.2.7-2 install ok installed python3-aiohttp python3-aiohttp 3.8.3-1+b1 install ok installed python3-aiosignal python3-aiosignal 1.3.1-1 install ok installed python3-alabaster python3-alabaster 0.7.12-1 install ok installed python3-all python3-all 3.10.6-3 install ok installed python3-all-dev python3-all-dev 3.10.6-3 install ok installed python3-appdirs python3-appdirs 1.4.4-3 install ok installed python3-async-timeout python3-async-timeout 4.0.2-1 install ok installed python3-attr python3-attr 22.1.0-1 install ok installed python3-avro python3-avro 1.11.1+dfsg-1 install ok installed python3-azure python3-azure 20221101+git-2 install ok installed python3-azure-storage python3-azure-storage 20221101+git-2 install ok installed python3-babel python3-babel 2.10.3-1 install ok installed python3-bcrypt python3-bcrypt 3.2.0-1+b2 install ok installed python3-beniget python3-beniget 0.4.1-3 install ok installed python3-blinker python3-blinker 1.5-1 install ok installed python3-boto3 python3-boto3 1.26.27+dfsg-1 install ok installed python3-botocore python3-botocore 1.29.27+repack-1 install ok installed python3-brotli python3-brotli 1.0.9-2+b5 install ok installed python3-certifi python3-certifi 2022.9.24-1 install ok installed python3-cffi-backend:amd64 python3-cffi-backend 1.15.1-4 install ok installed python3-chardet python3-chardet 5.1.0+dfsg-1 install ok installed python3-charset-normalizer python3-charset-normalizer 3.0.1-2 install ok installed python3-click python3-click 8.1.3-1 install ok installed python3-colorama python3-colorama 0.4.6-2 install ok installed python3-coloredlogs python3-coloredlogs 15.0.1-1 install ok installed python3-colormath python3-colormath 3.0.0-4 install ok installed python3-commonmark python3-commonmark 0.9.1-4 install ok installed python3-configargparse python3-configargparse 1.5.3-1 install ok installed python3-connection-pool python3-connection-pool 0.0.3-2 install ok installed python3-cryptography python3-cryptography 38.0.4-1 install ok installed python3-cutadapt python3-cutadapt 4.1-1+b1 install ok installed python3-cycler python3-cycler 0.11.0-1 install ok installed python3-dateutil python3-dateutil 2.8.2-1 install ok installed python3-datrie:amd64 python3-datrie 0.8.2-4 install ok installed python3-decorator python3-decorator 5.1.1-3 install ok installed python3-deeptools python3-deeptools 3.5.1-2 install ok installed python3-deeptoolsintervals python3-deeptoolsintervals 0.1.9-3+b5 install ok installed python3-dev python3-dev 3.10.6-3 install ok installed python3-distutils python3-distutils 3.10.8-1 install ok installed python3-dnaio python3-dnaio 0.9.1-1+b1 install ok installed python3-docutils python3-docutils 0.17.1+dfsg-3 install ok installed python3-fastjsonschema python3-fastjsonschema 2.15.1-3 install ok installed python3-fonttools python3-fonttools 4.37.4-1+b1 install ok installed python3-frozenlist python3-frozenlist 1.3.3-1 install ok installed python3-fs python3-fs 2.4.16-2 install ok installed python3-future python3-future 0.18.2-6 install ok installed python3-gast python3-gast 0.5.2-2 install ok installed python3-gi python3-gi 3.42.2-3 install ok installed python3-git python3-git 3.1.27-1 install ok installed python3-gitdb python3-gitdb 4.0.9-2 install ok installed python3-htseq python3-htseq 1.99.2-1+b2 install ok installed python3-humanfriendly python3-humanfriendly 10.0-3 install ok installed python3-idna python3-idna 3.3-1 install ok installed python3-imagesize python3-imagesize 1.4.1-1 install ok installed python3-isodate python3-isodate 0.6.1-1 install ok installed python3-jinja2 python3-jinja2 3.0.3-2 install ok installed python3-jmespath python3-jmespath 1.0.1-1 install ok installed python3-jsonschema python3-jsonschema 4.9.1-3 install ok installed python3-jupyter-core python3-jupyter-core 4.12.0-1 install ok installed python3-jwt python3-jwt 2.4.0-2 install ok installed python3-kiwisolver python3-kiwisolver 1.3.2-1+b3 install ok installed python3-lib2to3 python3-lib2to3 3.10.8-1 install ok installed python3-lxml:amd64 python3-lxml 4.9.1-1+b2 install ok installed python3-lz4 python3-lz4 4.0.2+dfsg-1+b1 install ok installed python3-lzstring python3-lzstring 1.0.4-2 install ok installed python3-markdown python3-markdown 3.4.1-2 install ok installed python3-markupsafe python3-markupsafe 2.1.1-1+b1 install ok installed python3-marshmallow python3-marshmallow 3.18.0-1 install ok installed python3-matplotlib python3-matplotlib 3.5.2-4 install ok installed python3-minimal python3-minimal 3.10.6-3 install ok installed python3-mpmath python3-mpmath 1.2.1-2 install ok installed python3-msal python3-msal 1.20.0-1 install ok installed python3-msal-extensions python3-msal-extensions 1.0.0-2 install ok installed python3-msrest python3-msrest 0.6.21-2 install ok installed python3-msrestazure python3-msrestazure 0.6.4-2 install ok installed python3-multidict python3-multidict 6.0.2-1+b1 install ok installed python3-nacl python3-nacl 1.5.0-2 install ok installed python3-nbformat python3-nbformat 5.5.0-1 install ok installed python3-networkx python3-networkx 2.6.3-1 install ok installed python3-numpy python3-numpy 1:1.23.5-2 install ok installed python3-numpydoc python3-numpydoc 1.5.0-1 install ok installed python3-oauthlib python3-oauthlib 3.2.1-2 install ok installed python3-packaging python3-packaging 21.3-1.1 install ok installed python3-paramiko python3-paramiko 2.12.0-2 install ok installed python3-pbr python3-pbr 5.10.0-2 install ok installed python3-pil:amd64 python3-pil 9.2.0-1.1+b1 install ok installed python3-pil.imagetk:amd64 python3-pil.imagetk 9.2.0-1.1+b1 install ok installed python3-pkg-resources python3-pkg-resources 65.5.0-1.1 install ok installed python3-plotly python3-plotly 5.4.1+dfsg-1 install ok installed python3-ply python3-ply 3.11-5 install ok installed python3-portalocker python3-portalocker 2.2.1-1 install ok installed python3-psutil python3-psutil 5.9.4-1 install ok installed python3-pulp python3-pulp 2.6.0+dfsg-1 install ok installed python3-py2bit python3-py2bit 0.3.1-1+b1 install ok installed python3-pybigwig python3-pybigwig 0.3.18+dfsg-1+b2 install ok installed python3-pygments python3-pygments 2.13.0+dfsg-1 install ok installed python3-pyparsing python3-pyparsing 3.0.9-1 install ok installed python3-pyrsistent:amd64 python3-pyrsistent 0.18.1-1+b2 install ok installed python3-pysam python3-pysam 0.20.0+ds-1 install ok installed python3-pythran python3-pythran 0.11.0+ds-7 install ok installed python3-ratelimiter python3-ratelimiter 1.2.0.post0-3 install ok installed python3-requests python3-requests 2.28.1+dfsg-1 install ok installed python3-requests-oauthlib python3-requests-oauthlib 1.3.0+ds-0.1 install ok installed python3-rich python3-rich 12.6.0-1 install ok installed python3-roman python3-roman 3.3-3 install ok installed python3-ruamel.yaml python3-ruamel.yaml 0.17.16-1 install ok installed python3-ruamel.yaml.clib:amd64 python3-ruamel.yaml.clib 0.2.7-1+b1 install ok installed python3-s3transfer python3-s3transfer 0.6.0-1 install ok installed python3-scipy python3-scipy 1.8.1-14+b1 install ok installed python3-setuptools python3-setuptools 65.5.0-1.1 install ok installed python3-simplejson python3-simplejson 3.17.6-1+b2 install ok installed python3-six python3-six 1.16.0-4 install ok installed python3-smart-open python3-smart-open 5.2.1-5 install ok installed python3-smmap python3-smmap 5.0.0-1 install ok installed python3-snowballstemmer python3-snowballstemmer 2.2.0-2 install ok installed python3-spectra python3-spectra 0.0.11-4 install ok installed python3-sphinx python3-sphinx 5.3.0-2 install ok installed python3-stopit python3-stopit 1.1.2-2 install ok installed python3-strictyaml python3-strictyaml 1.6.1-2 install ok installed python3-sympy python3-sympy 1.11.1-1 install ok installed python3-tabulate python3-tabulate 0.8.9-1 install ok installed python3-tenacity python3-tenacity 8.0.1-1 install ok installed python3-tk:amd64 python3-tk 3.10.8-1 install ok installed python3-toposort python3-toposort 1.7-1 install ok installed python3-tqdm python3-tqdm 4.64.0-2 install ok installed python3-traitlets python3-traitlets 5.5.0-1 install ok installed python3-typing-extensions python3-typing-extensions 4.3.0-2 install ok installed python3-tz python3-tz 2022.6-1 install ok installed python3-uamqp python3-uamqp 1.5.3-1+b3 install ok installed python3-ufolib2 python3-ufolib2 0.13.1+dfsg1-1 install ok installed python3-unicodedata2 python3-unicodedata2 14.0.0+ds2-1+b1 install ok installed python3-urllib3 python3-urllib3 1.26.12-1 install ok installed python3-wrapt python3-wrapt 1.14.1-2+b1 install ok installed python3-xopen python3-xopen 1.2.1-4 install ok installed python3-yaml python3-yaml 6.0-3+b1 install ok installed python3-yarl python3-yarl 1.8.1-1+b1 install ok installed python3.10 python3.10 3.10.9-1 install ok installed python3.10-dev python3.10-dev 3.10.9-1 install ok installed python3.10-minimal python3.10-minimal 3.10.9-1 install ok installed python3.11 python3.11 3.11.1-1 install ok installed python3.11-dev python3.11-dev 3.11.1-1 install ok installed python3.11-minimal python3.11-minimal 3.11.1-1 install ok installed r-base-core r-base-core 4.2.2.20221110-1 install ok installed r-bioc-annotate r-bioc-annotate 1.76.0+dfsg-1 install ok installed r-bioc-annotationdbi r-bioc-annotationdbi 1.60.0-1 install ok installed r-bioc-biobase r-bioc-biobase 2.58.0-2 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.44.0-2 install ok installed r-bioc-biocio r-bioc-biocio 1.8.0+dfsg-1 install ok installed r-bioc-biocparallel r-bioc-biocparallel 1.32.4-1 install ok installed r-bioc-biostrings r-bioc-biostrings 2.66.0-1 install ok installed r-bioc-delayedarray r-bioc-delayedarray 0.24.0+dfsg-1 install ok installed r-bioc-deseq2 r-bioc-deseq2 1.38.1+dfsg-1 install ok installed r-bioc-geneplotter r-bioc-geneplotter 1.76.0-1 install ok installed r-bioc-genomeinfodb r-bioc-genomeinfodb 1.34.4-1 install ok installed r-bioc-genomeinfodbdata r-bioc-genomeinfodbdata 1.2.9-1 install ok installed r-bioc-genomicalignments r-bioc-genomicalignments 1.34.0-1 install ok installed r-bioc-genomicranges r-bioc-genomicranges 1.50.1+dfsg-1 install ok installed r-bioc-iranges r-bioc-iranges 2.32.0-1 install ok installed r-bioc-keggrest r-bioc-keggrest 1.38.0+dfsg-1 install ok installed r-bioc-matrixgenerics r-bioc-matrixgenerics 1.10.0-1 install ok installed r-bioc-rhtslib r-bioc-rhtslib 2.0.0+dfsg-1 install ok installed r-bioc-rsamtools r-bioc-rsamtools 2.14.0-1 install ok installed r-bioc-rtracklayer r-bioc-rtracklayer 1.58.0-1 install ok installed r-bioc-s4vectors r-bioc-s4vectors 0.36.1-1 install ok installed r-bioc-summarizedexperiment r-bioc-summarizedexperiment 1.28.0+dfsg-1 install ok installed r-bioc-tximport r-bioc-tximport 1.26.0+dfsg-1 install ok installed r-bioc-xvector r-bioc-xvector 0.38.0-1 install ok installed r-bioc-zlibbioc r-bioc-zlibbioc 1.44.0+dfsg-1 install ok installed r-cran-abind r-cran-abind 1.4-5-2 install ok installed r-cran-askpass r-cran-askpass 1.1-2 install ok installed r-cran-backports r-cran-backports 1.4.1-1 install ok installed r-cran-base64enc r-cran-base64enc 0.1-3-3 install ok installed r-cran-bh r-cran-bh 1.74.0-2 install ok installed r-cran-bit r-cran-bit 4.0.5-1 install ok installed r-cran-bit64 r-cran-bit64 4.0.5-1 install ok installed r-cran-bitops r-cran-bitops 1.0-7-1 install ok installed r-cran-blob r-cran-blob 1.2.3-1 install ok installed r-cran-boot r-cran-boot 1.3-28.1-1 install ok installed r-cran-brio r-cran-brio 1.1.3-1+b1 install ok installed r-cran-broom r-cran-broom 1.0.1+dfsg-1 install ok installed r-cran-bslib r-cran-bslib 0.4.1+dfsg-1 install ok installed r-cran-cachem r-cran-cachem 1.0.6-1+b1 install ok installed r-cran-callr r-cran-callr 3.7.3-1 install ok installed r-cran-car r-cran-car 3.1-1-1 install ok installed r-cran-cardata r-cran-cardata 3.0.5-1 install ok installed r-cran-caret r-cran-caret 6.0-93+dfsg-1 install ok installed r-cran-cellranger r-cran-cellranger 1.1.0-3 install ok installed r-cran-class r-cran-class 7.3-20-1 install ok installed r-cran-cli r-cran-cli 3.4.1-1 install ok installed r-cran-clipr r-cran-clipr 0.8.0-1 install ok installed r-cran-codetools r-cran-codetools 0.2-18-1 install ok installed r-cran-colorspace r-cran-colorspace 2.0-3+dfsg-1 install ok installed r-cran-colourpicker r-cran-colourpicker 1.2.0+dfsg-1 install ok installed r-cran-commonmark r-cran-commonmark 1.8.1-1 install ok installed r-cran-conquer r-cran-conquer 1.3.1-1 install ok installed r-cran-corrplot r-cran-corrplot 0.92-1 install ok installed r-cran-cowplot r-cran-cowplot 1.1.1+dfsg-1 install ok installed r-cran-cpp11 r-cran-cpp11 0.4.3-1 install ok installed r-cran-crayon r-cran-crayon 1.5.2-1 install ok installed r-cran-crosstalk r-cran-crosstalk 1.2.0+dfsg-1 install ok installed r-cran-curl r-cran-curl 4.3.3+dfsg-1 install ok installed r-cran-data.table r-cran-data.table 1.14.6+dfsg-1 install ok installed r-cran-dbi r-cran-dbi 1.1.3-1 install ok installed r-cran-desc r-cran-desc 1.4.2-1 install ok installed r-cran-diffobj r-cran-diffobj 0.3.5-1+b1 install ok installed r-cran-digest r-cran-digest 0.6.31-1 install ok installed r-cran-dplyr r-cran-dplyr 1.0.10-1 install ok installed r-cran-dt r-cran-dt 0.26+dfsg-1 install ok installed r-cran-e1071 r-cran-e1071 1.7-12-1 install ok installed r-cran-ellipsis r-cran-ellipsis 0.3.2-2 install ok installed r-cran-evaluate r-cran-evaluate 0.18-1 install ok installed r-cran-fansi r-cran-fansi 1.0.3-1 install ok installed r-cran-farver r-cran-farver 2.1.1-1 install ok installed r-cran-fastmap r-cran-fastmap 1.1.0-1 install ok installed r-cran-fontawesome r-cran-fontawesome 0.4.0-1 install ok installed r-cran-forcats r-cran-forcats 0.5.2-1 install ok installed r-cran-foreach r-cran-foreach 1.5.2-1 install ok installed r-cran-foreign r-cran-foreign 0.8.84-1 install ok installed r-cran-formatr r-cran-formatr 1.12-1 install ok installed r-cran-fs r-cran-fs 1.5.2+dfsg-1 install ok installed r-cran-futile.logger r-cran-futile.logger 1.4.3-4 install ok installed r-cran-futile.options r-cran-futile.options 1.0.1-3 install ok installed r-cran-future r-cran-future 1.29.0+dfsg-1 install ok installed r-cran-future.apply r-cran-future.apply 1.10.0+dfsg-1 install ok installed r-cran-generics r-cran-generics 0.1.3-1 install ok installed r-cran-ggplot2 r-cran-ggplot2 3.4.0+dfsg-1 install ok installed r-cran-ggpubr r-cran-ggpubr 0.5.0-1 install ok installed r-cran-ggrepel r-cran-ggrepel 0.9.2-1 install ok installed r-cran-ggsci r-cran-ggsci 2.9-3 install ok installed r-cran-ggsignif r-cran-ggsignif 0.6.4-1 install ok installed r-cran-globals r-cran-globals 0.16.2-1 install ok installed r-cran-glue r-cran-glue 1.6.2-1 install ok installed r-cran-gower r-cran-gower 1.0.0-1 install ok installed r-cran-gprofiler2 r-cran-gprofiler2 0.2.1+dfsg-1 install ok installed r-cran-gridextra r-cran-gridextra 2.3-3 install ok installed r-cran-gtable r-cran-gtable 0.3.1+dfsg-1 install ok installed r-cran-hardhat r-cran-hardhat 1.2.0+dfsg-1 install ok installed r-cran-haven r-cran-haven 2.5.1-1 install ok installed r-cran-highr r-cran-highr 0.9+dfsg-1 install ok installed r-cran-hms r-cran-hms 1.1.2-1 install ok installed r-cran-htmltools r-cran-htmltools 0.5.4-1 install ok installed r-cran-htmlwidgets r-cran-htmlwidgets 1.5.4+dfsg-1 install ok installed r-cran-httpuv r-cran-httpuv 1.6.6+dfsg-1 install ok installed r-cran-httr r-cran-httr 1.4.4+dfsg-1 install ok installed r-cran-ipred r-cran-ipred 0.9-13-1 install ok installed r-cran-isoband r-cran-isoband 0.2.6-1 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-4 install ok installed r-cran-jsonlite r-cran-jsonlite 1.8.4+dfsg-1 install ok installed r-cran-kernsmooth r-cran-kernsmooth 2.23-20-1 install ok installed r-cran-knitr r-cran-knitr 1.41+dfsg-1 install ok installed r-cran-labeling r-cran-labeling 0.4.2-1 install ok installed r-cran-lambda.r r-cran-lambda.r 1.2.4-2 install ok installed r-cran-later r-cran-later 1.3.0+dfsg-1+b1 install ok installed r-cran-lattice r-cran-lattice 0.20-45-3 install ok installed r-cran-lava r-cran-lava 1.7.0+dfsg-1 install ok installed r-cran-lazyeval r-cran-lazyeval 0.2.2-1+b1 install ok installed r-cran-lifecycle r-cran-lifecycle 1.0.3+dfsg-1 install ok installed r-cran-listenv r-cran-listenv 0.8.0+dfsg-1 install ok installed r-cran-littler r-cran-littler 0.3.17-1 install ok installed r-cran-lme4 r-cran-lme4 1.1-31-1 install ok installed r-cran-locfit r-cran-locfit 1.5-9.6-1 install ok installed r-cran-lubridate r-cran-lubridate 1.9.0+dfsg-1 install ok installed r-cran-magrittr r-cran-magrittr 2.0.3-1 install ok installed r-cran-maptools r-cran-maptools 1:1.1-5+dfsg-1 install ok installed r-cran-mass r-cran-mass 7.3-58.1-1 install ok installed r-cran-matrix r-cran-matrix 1.5-3-1 install ok installed r-cran-matrixmodels r-cran-matrixmodels 0.5-1-1 install ok installed r-cran-matrixstats r-cran-matrixstats 0.63.0-1 install ok installed r-cran-memoise r-cran-memoise 2.0.1-1 install ok installed r-cran-mgcv r-cran-mgcv 1.8-41-1 install ok installed r-cran-mime r-cran-mime 0.12-1+b1 install ok installed r-cran-miniui r-cran-miniui 0.1.1.1-3 install ok installed r-cran-minqa r-cran-minqa 1.2.5-1 install ok installed r-cran-modelmetrics r-cran-modelmetrics 1.2.2.2-1+b1 install ok installed r-cran-munsell r-cran-munsell 0.5.0-2 install ok installed r-cran-nlme r-cran-nlme 3.1.161-1 install ok installed r-cran-nloptr r-cran-nloptr 2.0.3-1 install ok installed r-cran-nnet r-cran-nnet 7.3-18-1 install ok installed r-cran-numderiv r-cran-numderiv 2016.8-1.1-3 install ok installed r-cran-openssl r-cran-openssl 2.0.5+dfsg-1 install ok installed r-cran-openxlsx r-cran-openxlsx 4.2.5.1-1 install ok installed r-cran-parallelly r-cran-parallelly 1.32.1-1 install ok installed r-cran-pbkrtest r-cran-pbkrtest 0.5.1-1 install ok installed r-cran-pheatmap r-cran-pheatmap 1.0.12-2 install ok installed r-cran-pillar r-cran-pillar 1.8.1+dfsg-1 install ok installed r-cran-pkgconfig r-cran-pkgconfig 2.0.3-2 install ok installed r-cran-pkgkitten r-cran-pkgkitten 0.2.2-2 install ok installed r-cran-pkgload r-cran-pkgload 1.3.2-1 install ok installed r-cran-plogr r-cran-plogr 0.2.0-3 install ok installed r-cran-plotly r-cran-plotly 4.10.1+dfsg-1 install ok installed r-cran-plyr r-cran-plyr 1.8.8-1 install ok installed r-cran-png r-cran-png 0.1-8-1 install ok installed r-cran-polynom r-cran-polynom 1.4-1+dfsg-1 install ok installed r-cran-praise r-cran-praise 1.0.0-4 install ok installed r-cran-prettyunits r-cran-prettyunits 1.1.1-2 install ok installed r-cran-proc r-cran-proc 1.18.0-1+b1 install ok installed r-cran-processx r-cran-processx 3.8.0-1 install ok installed r-cran-prodlim r-cran-prodlim 2019.11.13-1+b1 install ok installed r-cran-progress r-cran-progress 1.2.2-2 install ok installed r-cran-progressr r-cran-progressr 0.11.0-1 install ok installed r-cran-promises r-cran-promises 1.2.0.1+dfsg-1 install ok installed r-cran-proxy r-cran-proxy 0.4-27-1 install ok installed r-cran-ps r-cran-ps 1.7.2-1 install ok installed r-cran-purrr r-cran-purrr 0.3.5-1 install ok installed r-cran-quantreg r-cran-quantreg 5.94-1 install ok installed r-cran-r6 r-cran-r6 2.5.1-1 install ok installed r-cran-rappdirs r-cran-rappdirs 0.3.3-1 install ok installed r-cran-rcolorbrewer r-cran-rcolorbrewer 1.1-3-1 install ok installed r-cran-rcpp r-cran-rcpp 1.0.9-1 install ok installed r-cran-rcpparmadillo r-cran-rcpparmadillo 0.11.4.2.1-1 install ok installed r-cran-rcppeigen r-cran-rcppeigen 0.3.3.9.3-1 install ok installed r-cran-rcurl r-cran-rcurl 1.98-1.9+dfsg-1 install ok installed r-cran-readr r-cran-readr 2.1.3-1 install ok installed r-cran-readxl r-cran-readxl 1.4.1-1 install ok installed r-cran-recipes r-cran-recipes 1.0.2+dfsg-1 install ok installed r-cran-rematch r-cran-rematch 1.0.1-3 install ok installed r-cran-rematch2 r-cran-rematch2 2.1.2-2 install ok installed r-cran-reshape2 r-cran-reshape2 1.4.4-2 install ok installed r-cran-restfulr r-cran-restfulr 0.0.15-1 install ok installed r-cran-rio r-cran-rio 0.5.29-1 install ok installed r-cran-rjson r-cran-rjson 0.2.21-1 install ok installed r-cran-rlang r-cran-rlang 1.0.6-1 install ok installed r-cran-rmarkdown r-cran-rmarkdown 2.18+dfsg-1 install ok installed r-cran-rpart r-cran-rpart 4.1.19-1 install ok installed r-cran-rprojroot r-cran-rprojroot 2.0.3-1 install ok installed r-cran-rsqlite r-cran-rsqlite 2.2.19-1 install ok installed r-cran-rstatix r-cran-rstatix 0.7.1-1 install ok installed r-cran-sass r-cran-sass 0.4.4+dfsg-1 install ok installed r-cran-scales r-cran-scales 1.2.1-1 install ok installed r-cran-shiny r-cran-shiny 1.7.3+dfsg-1 install ok installed r-cran-shinyjs r-cran-shinyjs 2.1.0-1 install ok installed r-cran-snow r-cran-snow 1:0.4.4-2 install ok installed r-cran-sourcetools r-cran-sourcetools 0.1.7-3 install ok installed r-cran-sp r-cran-sp 1:1.5-1+dfsg-1 install ok installed r-cran-sparsem r-cran-sparsem 1.81-1 install ok installed r-cran-squarem r-cran-squarem 2021.1-1 install ok installed r-cran-statmod r-cran-statmod 1.4.37-1 install ok installed r-cran-stringi r-cran-stringi 1.7.8-1+b1 install ok installed r-cran-stringr r-cran-stringr 1.5.0-1 install ok installed r-cran-survival r-cran-survival 3.4-0-1 install ok installed r-cran-sys r-cran-sys 3.4.1-1 install ok installed r-cran-testthat r-cran-testthat 3.1.6-1 install ok installed r-cran-tibble r-cran-tibble 3.1.8+dfsg-1 install ok installed r-cran-tidyr r-cran-tidyr 1.2.1-1 install ok installed r-cran-tidyselect r-cran-tidyselect 1.2.0+dfsg-1 install ok installed r-cran-timechange r-cran-timechange 0.1.1-3 install ok installed r-cran-timedate r-cran-timedate 4021.107-1 install ok installed r-cran-tinytex r-cran-tinytex 0.42-1 install ok installed r-cran-tzdb r-cran-tzdb 0.3.0-1 install ok installed r-cran-utf8 r-cran-utf8 1.2.2-1 install ok installed r-cran-vctrs r-cran-vctrs 0.5.1-1 install ok installed r-cran-viridislite r-cran-viridislite 0.4.1-1 install ok installed r-cran-vroom r-cran-vroom 1.6.0-1 install ok installed r-cran-waldo r-cran-waldo 0.4.0-1 install ok installed r-cran-withr r-cran-withr 2.5.0-1 install ok installed r-cran-xfun r-cran-xfun 0.35+dfsg-1 install ok installed r-cran-xml r-cran-xml 3.99-0.13-1 install ok installed r-cran-xtable r-cran-xtable 1:1.8-4-2 install ok installed r-cran-yaml r-cran-yaml 2.3.6-1 install ok installed r-cran-zip r-cran-zip 2.2.2-1 install ok installed readline-common readline-common 8.2-1.2 install ok installed rpcsvc-proto rpcsvc-proto 1.4.3-1 install ok installed salmon salmon 1.9.0+ds1-1 install ok installed samtools samtools 1.16.1-1 install ok installed sed sed 4.8-1 install ok installed sensible-utils sensible-utils 0.0.17 install ok installed sgml-base sgml-base 1.31 install ok installed shared-mime-info shared-mime-info 2.2-1 install ok installed snakemake snakemake 7.12.1-1 install ok installed sphinx-common sphinx-common 5.3.0-2 install ok installed sysvinit-utils sysvinit-utils 3.05-7 install ok installed tar tar 1.34+dfsg-1.1 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-4.1 install ok installed trim-galore trim-galore 0.6.7-1 install ok installed tzdata tzdata 2022f-1 install ok installed ucf ucf 3.0043 install ok installed unicode-data unicode-data 15.0.0-1 install ok installed unzip unzip 6.0-27 install ok installed usr-is-merged usr-is-merged 35 install ok installed usrmerge usrmerge 35 install ok installed util-linux util-linux 2.38.1-4 install ok installed util-linux-extra util-linux-extra 2.38.1-4 install ok installed x11-common x11-common 1:7.7+23 install ok installed xdg-utils xdg-utils 1.1.3-4.1 install ok installed xml-core xml-core 0.18+nmu1 install ok installed zip zip 3.0-12 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.2.13.dfsg-1 4m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 4m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'remove', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-12', 'cutadapt', 'default-jre', 'default-jre-headless', 'docutils-common', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++-', 'g++-12', 'gcc', 'gcc-12', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'libaec0:amd64', 'libapache-pom-java', 'libargs4j-java', 'libasan8:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbigwig0:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.74.0:amd64', 'libboost-iostreams1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgirepository-1.0-1:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhdf5-103-1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwloc15:amd64', 'libice6:amd64', 'libicu72:amd64', 'libimagequant0:amd64', 'libisal2', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', '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', 'libjs-underscore', 'libjson-perl', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblsan0:amd64', 'liblua5.3-0:amd64', 'libmjson-java', 'libmpc3:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.10:amd64', 'libpython3.10-dev:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libqhull-r8.0:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsis-base-java', 'libsis-base-jni', 'libsis-jhdf5-java', 'libsis-jhdf5-jni', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstaden-read14:amd64', 'libstdc++-12-dev:amd64', 'libsz2:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsimd-dev:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'linux-libc-dev:amd64', 'littler', 'media-types', 'megadepth', 'multiqc', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-alabaster', 'python3-all', 'python3-all-dev', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-babel', 'python3-bcrypt', 'python3-beniget', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-colorama', 'python3-coloredlogs', 'python3-colormath', 'python3-commonmark', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-dev', 'python3-distutils', 'python3-dnaio', 'python3-docutils', 'python3-fastjsonschema', 'python3-fonttools', 'python3-frozenlist', 'python3-fs', 'python3-future', 'python3-gast', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-idna', 'python3-imagesize', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markupsafe', 'python3-marshmallow', 'python3-matplotlib', 'python3-minimal', 'python3-mpmath', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpydoc', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pbr', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-plotly', 'python3-ply', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-pysam', 'python3-pythran', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-rich', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-scipy', 'python3-setuptools', 'python3-simplejson', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-strictyaml', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-tk:amd64', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-tz', 'python3-uamqp', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yarl', 'python3.10', 'python3.10-dev', 'python3.10-minimal', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-geneplotter', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4vectors', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-boot', 'r-cran-brio', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-cellranger', 'r-cran-class', 'r-cran-cli', 'r-cran-clipr', '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-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-forcats', 'r-cran-foreach', 'r-cran-foreign', 'r-cran-formatr', '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-haven', 'r-cran-highr', 'r-cran-hms', '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-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-maptools', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-openxlsx', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-png', 'r-cran-polynom', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-proc', 'r-cran-processx', 'r-cran-prodlim', 'r-cran-progress', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-ps', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-readr', 'r-cran-readxl', 'r-cran-recipes', 'r-cran-rematch', 'r-cran-rematch2', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rio', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstatix', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sp', 'r-cran-sparsem', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-vroom', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zip', 'readline-common', 'rpcsvc-proto', 'salmon', 'samtools', 'sensible-utils', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'tk8.6-blt2.5', 'trim-galore', 'ucf', 'unicode-data', 'unzip', 'x11-common', 'xdg-utils', 'xml-core', 'zip', 'zlib1g-dev:amd64', 'pigx-rnaseq'] 5m6.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: adwaita-icon-theme at-spi2-common binutils binutils-common binutils-x86-64-linux-gnu blt ca-certificates ca-certificates-java coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 cpp cpp-12 cutadapt default-jre default-jre-headless docutils-common fastp fastqc fontconfig fontconfig-config fonts-dejavu-core fonts-font-awesome fonts-glyphicons-halflings fonts-lyx fonts-mathjax g++ g++-12 gcc gcc-12 gir1.2-glib-2.0 git git-man gtk-update-icon-cache hicolor-icon-theme hisat2 java-common javascript-common libaec0 libapache-pom-java libargs4j-java libasan8 libasound2 libasound2-data libatk1.0-0 libatomic1 libavahi-client3 libavahi-common-data libavahi-common3 libbigwig0 libbinutils libblas3 libboost-dev libboost-filesystem1.74.0 libboost-iostreams1.74.0 libboost-program-options1.74.0 libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcrypt-dev libctf-nobfd0 libctf0 libcups2 libcurl3-gnutls libcurl4 libdatrie1 libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 liberror-perl libexpat1 libexpat1-dev libfindbin-libs-perl libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgirepository-1.0-1 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhdf5-103-1 libhts3 libhtscodecs2 libhtsjdk-java libhwloc15 libice6 libicu72 libimagequant0 libisal2 libisl23 libitm1 libjansson4 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 libjs-underscore libjson-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm15 liblsan0 liblua5.3-0 libmjson-java libmpc3 libmpdec3 libmpfr6 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnlopt0 libnsl-dev libnsl2 libnspr4 libnss3 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcsclite1 libpixman-1-0 libpng16-16 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libqhull-r8.0 libquadmath0 libraqm0 libreadline8 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsis-base-java libsis-base-jni libsis-jhdf5-java libsis-jhdf5-jni libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsodium23 libsqlite3-0 libssh2-1 libssl3 libstaden-read14 libstdc++-12-dev libsz2 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-common libtirpc-dev libtirpc3 libtk8.6 libtsan2 libubsan1 libuv1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxshmfence1 libxsimd-dev libxslt1.1 libxss1 libxt6 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 linux-libc-dev littler media-types megadepth multiqc node-bootstrap-sass node-html5shiv node-normalize.css openjdk-17-jre openjdk-17-jre-headless openssl pandoc pandoc-data pigx-rnaseq pigz python-babel-localedata python-matplotlib-data python3 python3-adal python3-aiohttp python3-aiosignal python3-alabaster python3-all python3-all-dev python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-babel python3-bcrypt python3-beniget python3-blinker python3-boto3 python3-botocore python3-brotli python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-click python3-colorama python3-coloredlogs python3-colormath python3-commonmark python3-configargparse python3-connection-pool python3-cryptography python3-cutadapt python3-cycler python3-dateutil python3-datrie python3-decorator python3-deeptools python3-deeptoolsintervals python3-dev python3-distutils python3-dnaio python3-docutils python3-fastjsonschema python3-fonttools python3-frozenlist python3-fs python3-future python3-gast python3-gi python3-git python3-gitdb python3-htseq python3-humanfriendly python3-idna python3-imagesize python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-lzstring python3-markdown python3-markupsafe python3-marshmallow python3-matplotlib python3-minimal python3-mpmath python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-networkx python3-numpy python3-numpydoc python3-oauthlib python3-packaging python3-paramiko python3-pbr python3-pil python3-pil.imagetk python3-pkg-resources python3-plotly python3-ply python3-portalocker python3-psutil python3-pulp python3-py2bit python3-pybigwig python3-pygments python3-pyparsing python3-pyrsistent python3-pysam python3-pythran python3-ratelimiter python3-requests python3-requests-oauthlib python3-rich python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-scipy python3-setuptools python3-simplejson python3-six python3-smart-open python3-smmap python3-snowballstemmer python3-spectra python3-sphinx python3-stopit python3-strictyaml python3-sympy python3-tabulate python3-tenacity python3-tk python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-tz python3-uamqp python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wrapt python3-xopen python3-yaml python3-yarl python3.10 python3.10-dev python3.10-minimal python3.11 python3.11-dev python3.11-minimal r-base-core r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-delayedarray r-bioc-deseq2 r-bioc-geneplotter r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-tximport r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-boot r-cran-brio r-cran-broom r-cran-bslib r-cran-cachem r-cran-callr r-cran-car r-cran-cardata r-cran-caret r-cran-cellranger r-cran-class r-cran-cli r-cran-clipr 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-dbi r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-forcats r-cran-foreach r-cran-foreign r-cran-formatr 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-haven r-cran-highr r-cran-hms 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-locfit r-cran-lubridate r-cran-magrittr r-cran-maptools r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-miniui r-cran-minqa r-cran-modelmetrics r-cran-munsell r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-openxlsx r-cran-parallelly r-cran-pbkrtest r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-plotly r-cran-plyr r-cran-png r-cran-polynom r-cran-praise r-cran-prettyunits r-cran-proc r-cran-processx r-cran-prodlim r-cran-progress r-cran-progressr r-cran-promises r-cran-proxy r-cran-ps r-cran-purrr r-cran-quantreg r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcurl r-cran-readr r-cran-readxl r-cran-recipes r-cran-rematch r-cran-rematch2 r-cran-reshape2 r-cran-restfulr r-cran-rio r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rprojroot r-cran-rsqlite r-cran-rstatix r-cran-sass r-cran-scales r-cran-shiny r-cran-shinyjs r-cran-snow r-cran-sourcetools r-cran-sp r-cran-sparsem r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tzdb r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-vroom r-cran-waldo r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml r-cran-zip readline-common rpcsvc-proto salmon samtools sensible-utils sgml-base shared-mime-info snakemake sphinx-common tk8.6-blt2.5 trim-galore ucf unicode-data unzip x11-common xdg-utils xml-core zip zlib1g-dev 0 upgraded, 0 newly installed, 684 to remove and 0 not upgraded. After this operation, 3099 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 ... 127203 files and directories currently installed.) Removing pigx-rnaseq (0.1.0-1.1) ... Removing fastqc (0.11.9+dfsg-6) ... Removing default-jre (2:1.17-73) ... Removing openjdk-17-jre:amd64 (17.0.5+8-2) ... Removing libgtk2.0-0:amd64 (2.24.33-2) ... Removing adwaita-icon-theme (43-1) ... Removing libatk1.0-0:amd64 (2.46.0-4) ... Removing at-spi2-common (2.46.0-4) ... Removing python3-deeptools (3.5.1-2) ... Removing g++ (4:12.2.0-1) ... Removing gcc (4:12.2.0-1) ... Removing multiqc (1.12+dfsg-1) ... Removing python3-matplotlib (3.5.2-4) ... Removing snakemake (7.12.1-1) ... Removing python3-numpydoc (1.5.0-1) ... Removing python3-sphinx (5.3.0-2) ... Removing default-jre-headless (2:1.17-73) ... Removing openjdk-17-jre-headless:amd64 (17.0.5+8-2) ... Removing ca-certificates-java (20220719) ... Removing python3-pulp (2.6.0+dfsg-1) ... Removing coinor-cbc (2.10.8+ds1-1) ... Removing coinor-libcbc3:amd64 (2.10.8+ds1-1) ... Removing coinor-libcgl1:amd64 (0.60.3+repack1-4) ... Removing coinor-libclp1:amd64 (1.17.6-3) ... Removing coinor-libosi1v5:amd64 (0.108.6+repack1-2) ... Removing coinor-libcoinutils3v5:amd64 (2.11.4+repack1-2) ... Removing cpp (4:12.2.0-1) ... Removing trim-galore (0.6.7-1) ... Removing cutadapt (4.1-1) ... Removing python3-docutils (0.17.1+dfsg-3) ... Removing docutils-common (0.17.1+dfsg-3) ... Removing fastp (0.23.2+dfsg-2+b1) ... Removing r-cran-ggpubr (0.5.0-1) ... Removing r-cran-rstatix (0.7.1-1) ... Removing r-cran-car (3.1-1-1) ... Removing r-cran-quantreg (5.94-1) ... Removing r-cran-conquer (1.3.1-1) ... Removing r-cran-caret (6.0-93+dfsg-1) ... Removing r-cran-recipes (1.0.2+dfsg-1) ... Removing r-cran-ipred (0.9-13-1) ... Removing r-cran-rpart (4.1.19-1) ... Removing r-cran-prodlim (2019.11.13-1+b1) ... Removing r-cran-abind (1.4-5-2) ... Removing r-bioc-rtracklayer (1.58.0-1) ... Removing r-cran-pbkrtest (0.5.1-1) ... Removing r-cran-lme4 (1.1-31-1) ... Removing r-cran-rcppeigen (0.3.3.9.3-1) ... Removing python-matplotlib-data (3.5.2-4) ... Removing r-cran-gprofiler2 (0.2.1+dfsg-1) ... Removing r-cran-plotly (4.10.1+dfsg-1) ... Removing r-cran-colourpicker (1.2.0+dfsg-1) ... Removing r-cran-shinyjs (2.1.0-1) ... Removing r-cran-rmarkdown (2.18+dfsg-1) ... Removing r-cran-knitr (1.41+dfsg-1) ... Removing r-cran-dt (0.26+dfsg-1) ... Removing r-cran-crosstalk (1.2.0+dfsg-1) ... Removing fonts-lyx (2.3.6.1-1) ... dpkg: warning: while removing fonts-lyx, directory '/usr/share/fonts/truetype/lyx' not empty so not removed Removing libjs-mathjax (2.7.9+dfsg-1) ... Removing fonts-mathjax (2.7.9+dfsg-1) ... dpkg: warning: while removing fonts-mathjax, directory '/usr/share/javascript/mathjax/fonts/HTML-CSS/TeX/otf' not empty so not removed Removing python3-smart-open (5.2.1-5) ... Removing python3-git (3.1.27-1) ... Removing git (1:2.39.0-1) ... Removing git-man (1:2.39.0-1) ... Removing gtk-update-icon-cache (3.24.35-3) ... Removing hicolor-icon-theme (0.17-2) ... Removing hisat2 (2.2.1-4) ... Removing java-common (0.73) ... Removing libsis-jhdf5-java (19.04.1+dfsg-2) ... Removing libsis-jhdf5-jni (19.04.1+dfsg-2) ... Removing libhdf5-103-1:amd64 (1.10.8+repack1-1) ... Removing libsz2:amd64 (1.0.6-1+b1) ... Removing libaec0:amd64 (1.0.6-1+b1) ... Removing libhtsjdk-java (3.0.2+dfsg-1) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing libcommons-logging-java (1.2-3) ... Removing libcommons-lang3-java (3.12.0-2) ... Removing libargs4j-java (2.33-2) ... Removing libasound2:amd64 (1.2.8-1) ... Removing libasound2-data (1.2.8-1) ... Removing libcups2:amd64 (2.4.2-1+b2) ... Removing libavahi-client3:amd64 (0.8-6+b1) ... Removing libavahi-common3:amd64 (0.8-6+b1) ... Removing libavahi-common-data:amd64 (0.8-6+b1) ... Removing megadepth (1.2.0-4) ... Removing python3-pybigwig (0.3.18+dfsg-1+b2) ... Removing libbigwig0:amd64 (0.4.7+dfsg-3) ... Removing r-bioc-deseq2 (1.38.1+dfsg-1) ... Removing r-cran-rcpparmadillo (0.11.4.2.1-1) ... Removing python3-spectra (0.0.11-4) ... Removing python3-colormath (3.0.0-4) ... Removing r-cran-ggsignif (0.6.4-1) ... Removing libblas3:amd64 (3.11.0-2) ... Removing salmon (1.9.0+ds1-1) ... Removing libboost-filesystem1.74.0:amd64 (1.74.0-18) ... Removing libboost-iostreams1.74.0:amd64 (1.74.0-18) ... Removing libboost-program-options1.74.0:amd64 (1.74.0-18) ... Removing r-cran-restfulr (0.0.15-1) ... Removing libgl1:amd64 (1.5.0-1) ... Removing libglx0:amd64 (1.5.0-1) ... Removing libglx-mesa0:amd64 (22.3.1-1) ... Removing libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Removing r-bioc-genomicalignments (1.34.0-1) ... Removing r-bioc-summarizedexperiment (1.28.0+dfsg-1) ... Removing r-bioc-geneplotter (1.76.0-1) ... Removing libcommons-compress-java (1.22-1) ... Removing libsis-base-java (18.09~pre1+git20180928.45fbd31+dfsg-3) ... Removing libcommons-io-java (2.11.0-2) ... Removing libcommons-math3-java (3.6.1-3) ... Removing libstaden-read14:amd64 (1.14.14+dfsg-3) ... Removing samtools (1.16.1-1) ... Removing python3-datrie:amd64 (0.8.2-4) ... Removing libdbus-1-3:amd64 (1.14.4-1) ... Removing libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1) ... Removing libgl1-mesa-dri:amd64 (22.3.1-1) ... Removing libdrm-amdgpu1:amd64 (2.4.114-1) ... Removing libdrm-radeon1:amd64 (2.4.114-1) ... Removing libdrm-nouveau2:amd64 (2.4.114-1) ... Removing libdrm-intel1:amd64 (2.4.114-1) ... Removing libllvm15:amd64 (1:15.0.6-3) ... Removing libedit2:amd64 (3.1-20221030-2) ... Removing libelf1:amd64 (0.188-1) ... Removing liberror-perl (0.17029-2) ... Removing python3-deeptoolsintervals (0.1.9-3+b5) ... Removing libfindbin-libs-perl (3.0.1-2) ... Removing libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Removing libopenblas-dev:amd64 (0.3.21+ds-3) ... Removing libopenblas0:amd64 (0.3.21+ds-3) ... Removing liblapack3:amd64 (3.11.0-2) ... Removing libgif7:amd64 (5.2.1-2.5) ... Removing libglapi-mesa:amd64 (22.3.1-1) ... Removing shared-mime-info (2.2-1) ... Removing libglvnd0:amd64 (1.5.0-1) ... Removing r-cran-gower (1.0.0-1) ... Removing r-cran-rio (0.5.29-1) ... Removing libgtk2.0-common (2.24.33-2) ... Removing libtbb12:amd64 (2021.7.0-1) ... Removing libtbbbind-2-5:amd64 (2021.7.0-1) ... Removing libhwloc15:amd64 (2.9.0-1) ... Removing r-cran-reshape2 (1.4.4-2) ... Removing r-cran-broom (1.0.1+dfsg-1) ... Removing r-cran-stringr (1.5.0-1) ... Removing r-cran-openxlsx (4.2.5.1-1) ... Removing r-cran-stringi (1.7.8-1+b1) ... Removing r-bioc-annotate (1.76.0+dfsg-1) ... Removing r-cran-xml (3.99-0.13-1) ... Removing libisal2 (2.30.0-5) ... Removing libjbzip2-java (0.9.1-8) ... Removing libjemalloc2:amd64 (5.2.1-5) ... Removing r-cran-highr (0.9+dfsg-1) ... Removing sphinx-common (5.3.0-2) ... Removing libjs-jquery-datatables-extensions (0.0+git20150910.28fd64e+dfsg-5) ... Removing libjs-jquery-tablesorter (1:2.31.3+dfsg1-3) ... Removing libjs-jquery-metadata (12-4) ... Removing libjs-modernizr (2.6.2+ds1-5) ... Removing libjs-prettify (2015.12.04+dfsg-1.1) ... Removing libjson-perl (4.10000-1) ... Removing pandoc (2.17.1.1-1.1) ... Removing liblua5.3-0:amd64 (5.3.6-2) ... Removing libmjson-java (1.4.0-3) ... Removing libncurses6:amd64 (6.3+20220423-2) ... Removing libngs-java:amd64 (2.11.2-4) ... Removing libngs-sdk-dev:amd64 (2.11.2-4) ... Removing libngs-sdk2:amd64 (2.11.2-4) ... Removing r-cran-nloptr (2.0.3-1) ... Removing libnlopt0:amd64 (2.7.1-4+b3) ... Removing libnss3:amd64 (2:3.85-1) ... Removing libnspr4:amd64 (2:4.35-1) ... Removing libpciaccess0:amd64 (0.17-2) ... Removing libpcsclite1:amd64 (1.9.9-1) ... Removing python3-plotly (5.4.1+dfsg-1) ... Removing python3-tenacity (8.0.1-1) ... Removing python3-pbr (5.10.0-2) ... Removing python3-setuptools (65.5.0-1.1) ... Removing python3-nbformat (5.5.0-1) ... Removing python3-jupyter-core (4.12.0-1) ... Removing python3-traitlets (5.5.0-1) ... Removing libqhull-r8.0:amd64 (2020.2-5) ... Removing librhino-java (1.7.7.2-3) ... Removing libsensors5:amd64 (1:3.6.0-7.1) ... Removing libsensors-config (1:3.6.0-7.1) ... Removing libsis-base-jni (18.09~pre1+git20180928.45fbd31+dfsg-3) ... Removing libsnappy-java (1.1.8.3-1) ... Removing libsnappy-jni (1.1.8.3-1) ... Removing libsnappy1v5:amd64 (1.1.9-2) ... Removing python3-paramiko (2.12.0-2) ... Removing python3-nacl (1.5.0-2) ... Removing libsodium23:amd64 (1.0.18-1) ... Removing libtbbmalloc2:amd64 (2021.7.0-1) ... Removing libx11-xcb1:amd64 (2:1.8.1-2) ... Removing libxcb-dri2-0:amd64 (1.15-1) ... Removing libxcb-dri3-0:amd64 (1.15-1) ... Removing libxcb-glx0:amd64 (1.15-1) ... Removing libxcb-present0:amd64 (1.15-1) ... Removing libxcb-sync1:amd64 (1.15-1) ... Removing libxcb-xfixes0:amd64 (1.15-1) ... Removing libxcomposite1:amd64 (1:0.4.5-1) ... Removing libxcursor1:amd64 (1:1.2.1-1) ... Removing libxdamage1:amd64 (1:1.1.5-2) ... Removing libxtst6:amd64 (2:1.2.3-1.1) ... Removing libxfixes3:amd64 (1:6.0.0-2) ... Removing libxi6:amd64 (2:1.8-1+b1) ... Removing libxinerama1:amd64 (2:1.1.4-3) ... Removing libxrandr2:amd64 (2:1.5.2-2+b1) ... Removing libxshmfence1:amd64 (1.3-1) ... Removing libz3-4:amd64 (4.8.12-3) ... Removing r-cran-haven (2.5.1-1) ... Removing r-cran-readr (2.1.3-1) ... Removing littler (0.3.17-1) ... Removing pandoc-data (2.17.1.1-1.1) ... Removing python3-cutadapt (4.1-1+b1) ... Removing python3-dnaio (0.9.1-1+b1) ... Removing python3-xopen (1.2.1-4) ... Removing pigz (2.6-1) ... Removing python3-babel (2.10.3-1) ... Removing python-babel-localedata (2.10.3-1) ... Removing python3-alabaster (0.7.12-1) ... Removing python3-bcrypt (3.2.0-1+b2) ... Removing python3-boto3 (1.26.27+dfsg-1) ... Removing python3-s3transfer (0.6.0-1) ... Removing python3-botocore (1.29.27+repack-1) ... Removing python3-click (8.1.3-1) ... Removing python3-coloredlogs (15.0.1-1) ... Removing python3-rich (12.6.0-1) ... Removing python3-commonmark (0.9.1-4) ... Removing python3-configargparse (1.5.3-1) ... Removing python3-connection-pool (0.0.3-2) ... Removing python3-cycler (0.11.0-1) ... Removing python3-fastjsonschema (2.15.1-3) ... Removing python3-lzstring (1.0.4-2) ... Removing python3-future (0.18.2-6) ... Removing python3-gitdb (4.0.9-2) ... Removing python3-htseq (1.99.2-1+b2) ... Removing python3-humanfriendly (10.0-3) ... Removing python3-imagesize (1.4.1-1) ... Removing python3-jinja2 (3.0.3-2) ... Removing python3-jmespath (1.0.1-1) ... Removing python3-kiwisolver (1.3.2-1+b3) ... Removing python3-markdown (3.4.1-2) ... Removing python3-markupsafe (2.1.1-1+b1) ... Removing python3-networkx (2.6.3-1) ... Removing python3-stopit (1.1.2-2) ... Removing python3-pygments (2.13.0+dfsg-1) ... Removing python3-psutil (5.9.4-1) ... Removing python3-py2bit (0.3.1-1+b1) ... Removing python3-pysam (0.20.0+ds-1) ... Removing python3-ratelimiter (1.2.0.post0-3) ... Removing python3-roman (3.3-3) ... Removing python3-simplejson (3.17.6-1+b2) ... Removing python3-wrapt (1.14.1-2+b1) ... Removing python3-smmap (5.0.0-1) ... Removing python3-snowballstemmer (2.2.0-2) ... Removing python3-tabulate (0.8.9-1) ... Removing python3-toposort (1.7-1) ... Removing r-bioc-delayedarray (0.24.0+dfsg-1) ... Removing r-bioc-biocio (1.8.0+dfsg-1) ... Removing r-bioc-tximport (1.26.0+dfsg-1) ... Removing r-bioc-matrixgenerics (1.10.0-1) ... Removing r-cran-backports (1.4.1-1) ... Removing r-cran-miniui (0.1.1.1-3) ... Removing r-cran-vroom (1.6.0-1) ... Removing r-cran-boot (1.3-28.1-1) ... Removing r-cran-testthat (3.1.6-1) ... Removing r-cran-brio (1.1.3-1+b1) ... Removing r-cran-callr (3.7.3-1) ... Removing r-cran-cardata (3.0.5-1) ... Removing r-cran-readxl (1.4.1-1) ... Removing r-cran-cellranger (1.1.0-3) ... Removing r-cran-e1071 (1.7-12-1) ... Removing r-cran-class (7.3-20-1) ... Removing r-cran-waldo (0.4.0-1) ... Removing r-cran-tidyr (1.2.1-1) ... Removing r-cran-clipr (0.8.0-1) ... Removing r-cran-lava (1.7.0+dfsg-1) ... Removing r-cran-future.apply (1.10.0+dfsg-1) ... Removing r-cran-future (1.29.0+dfsg-1) ... Removing r-cran-globals (0.16.2-1) ... Removing r-cran-foreach (1.5.2-1) ... Removing r-cran-pheatmap (1.0.12-2) ... Removing r-cran-ggsci (2.9-3) ... Removing r-cran-corrplot (0.92-1) ... Removing r-cran-cowplot (1.1.1+dfsg-1) ... Removing r-cran-tzdb (0.3.0-1) ... Removing r-cran-lubridate (1.9.0+dfsg-1) ... Removing r-cran-timechange (0.1.1-3) ... Removing r-cran-progress (1.2.2-2) ... Removing r-cran-pkgload (1.3.2-1) ... Removing r-cran-modelmetrics (1.2.2.2-1+b1) ... Removing r-cran-desc (1.4.2-1) ... Removing r-cran-diffobj (0.3.5-1+b1) ... Removing r-cran-progressr (0.11.0-1) ... Removing r-cran-dplyr (1.0.10-1) ... Removing r-cran-hms (1.1.2-1) ... Removing r-cran-forcats (0.5.2-1) ... Removing r-cran-evaluate (0.18-1) ... Removing r-cran-hardhat (1.2.0+dfsg-1) ... Removing r-cran-rematch2 (2.1.2-2) ... Removing r-cran-maptools (1:1.1-5+dfsg-1) ... Removing r-cran-foreign (0.8.84-1) ... Removing r-cran-generics (0.1.3-1) ... Removing r-cran-ggrepel (0.9.2-1) ... Removing r-cran-tidyselect (1.2.0+dfsg-1) ... Removing r-cran-gridextra (2.3-3) ... Removing r-cran-htmlwidgets (1.5.4+dfsg-1) ... Removing r-cran-iterators (1.0.14-1) ... Removing r-cran-kernsmooth (2.23-20-1) ... Removing r-cran-sp (1:1.5-1+dfsg-1) ... Removing r-cran-locfit (1.5-9.6-1) ... Removing r-cran-lazyeval (0.2.2-1+b1) ... Removing r-cran-listenv (0.8.0+dfsg-1) ... Removing r-cran-rjson (0.2.21-1) ... Removing r-cran-purrr (0.3.5-1) ... Removing r-cran-matrixmodels (0.5-1-1) ... Removing r-cran-matrixstats (0.63.0-1) ... Removing r-cran-minqa (1.2.5-1) ... Removing r-cran-nnet (7.3-18-1) ... Removing r-cran-numderiv (2016.8-1.1-3) ... Removing r-cran-parallelly (1.32.1-1) ... Removing r-cran-proc (1.18.0-1+b1) ... Removing r-cran-plyr (1.8.8-1) ... Removing r-cran-polynom (1.4-1+dfsg-1) ... Removing r-cran-praise (1.0.0-4) ... Removing r-cran-prettyunits (1.1.1-2) ... Removing r-cran-processx (3.8.0-1) ... Removing r-cran-proxy (0.4-27-1) ... Removing r-cran-ps (1.7.2-1) ... Removing r-cran-rematch (1.0.1-3) ... Removing r-cran-rprojroot (2.0.3-1) ... Removing r-cran-sparsem (1.81-1) ... Removing r-cran-squarem (2021.1-1) ... Removing r-cran-statmod (1.4.37-1) ... Removing r-cran-timedate (4021.107-1) ... Removing r-cran-tinytex (0.42-1) ... Removing r-cran-xfun (0.35+dfsg-1) ... Removing r-cran-yaml (2.3.6-1) ... Removing r-cran-zip (2.2.2-1) ... Removing xml-core (0.18+nmu1) ... Removing sgml-base (1.31) ... Removing r-cran-survival (3.4-0-1) ... Removing r-bioc-rsamtools (2.14.0-1) ... Removing r-bioc-biocparallel (1.32.4-1) ... Removing r-cran-snow (1:0.4.4-2) ... Removing r-cran-shiny (1.7.3+dfsg-1) ... Removing fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Removing r-cran-bslib (0.4.1+dfsg-1) ... Removing libjs-bootstrap4 (4.6.1+dfsg1-4) ... Removing libjs-popper.js (1.16.1+ds-6) ... Removing javascript-common (11+nmu1) ... Removing libcommons-parent-java (43-1) ... Removing libapache-pom-java (25-2) ... Removing r-cran-bh (1.74.0-2) ... Removing r-cran-ggplot2 (3.4.0+dfsg-1) ... Removing r-cran-mgcv (1.8-41-1) ... Removing r-bioc-genomicranges (1.50.1+dfsg-1) ... Removing r-bioc-annotationdbi (1.60.0-1) ... Removing r-bioc-keggrest (1.38.0+dfsg-1) ... Removing r-bioc-biostrings (2.66.0-1) ... Removing r-bioc-xvector (0.38.0-1) ... Removing r-bioc-rhtslib (2.0.0+dfsg-1) ... Removing r-bioc-zlibbioc (1.44.0+dfsg-1) ... Removing libhts3:amd64 (1.16+ds-3) ... Removing libcurl3-gnutls:amd64 (7.86.0-2) ... Removing libdrm2:amd64 (2.4.114-1) ... Removing libdrm-common (2.4.114-1) ... Removing r-cran-data.table (1.14.6+dfsg-1) ... Removing libhtscodecs2:amd64 (1.3.0-4) ... Removing libjs-d3 (3.5.17-4) ... Removing libjs-es5-shim (4.6.7-2) ... Removing libjs-highlight.js (9.18.5+dfsg1-2) ... Removing r-cran-jquerylib (0.1.4+dfsg-4) ... Removing libjs-jquery-datatables (1.11.5+dfsg-2) ... Removing libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... Removing libjs-jquery-ui (1.13.2+dfsg-1) ... Removing libjs-json (0~20210531+~1.0.8-1) ... Removing libjs-microplugin.js (0.0.3+dfsg-1.1) ... Removing libjs-sifter.js (0.6.0+dfsg-3) ... Removing libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... Removing r-cran-png (0.1-8-1) ... Removing r-cran-httr (1.4.4+dfsg-1) ... Removing r-cran-openssl (2.0.5+dfsg-1) ... Removing r-cran-httpuv (1.6.6+dfsg-1) ... Removing r-cran-sass (0.4.4+dfsg-1) ... Removing r-cran-fs (1.5.2+dfsg-1) ... Removing libuv1:amd64 (1.44.2-1) ... Removing r-cran-rsqlite (2.2.19-1) ... Removing node-bootstrap-sass (3.4.3-2) ... Removing node-html5shiv (3.7.3+dfsg-5) ... Removing node-normalize.css (8.0.1-5) ... Removing r-bioc-biobase (2.58.0-2) ... Removing r-bioc-genomeinfodb (1.34.4-1) ... Removing r-bioc-iranges (2.32.0-1) ... Removing r-bioc-s4vectors (0.36.1-1) ... Removing r-bioc-biocgenerics (0.44.0-2) ... Removing r-bioc-genomeinfodbdata (1.2.9-1) ... Removing r-cran-askpass (1.1-2) ... Removing r-cran-fontawesome (0.4.0-1) ... Removing r-cran-htmltools (0.5.4-1) ... Removing r-cran-base64enc (0.1-3-3) ... Removing r-cran-bit64 (4.0.5-1) ... Removing r-cran-bit (4.0.5-1) ... Removing r-cran-blob (1.2.3-1) ... Removing r-cran-memoise (2.0.1-1) ... Removing r-cran-cachem (1.0.6-1+b1) ... Removing r-cran-codetools (0.2-18-1) ... Removing r-cran-scales (1.2.1-1) ... Removing r-cran-munsell (0.5.0-2) ... Removing r-cran-colorspace (2.0-3+dfsg-1) ... Removing r-cran-commonmark (1.8.1-1) ... Removing r-cran-cpp11 (0.4.3-1) ... Removing r-cran-crayon (1.5.2-1) ... Removing r-cran-curl (4.3.3+dfsg-1) ... Removing r-cran-dbi (1.1.3-1) ... Removing r-cran-digest (0.6.31-1) ... Removing r-cran-ellipsis (0.3.2-2) ... Removing r-cran-tibble (3.1.8+dfsg-1) ... Removing r-cran-pillar (1.8.1+dfsg-1) ... Removing r-cran-fansi (1.0.3-1) ... Removing r-cran-farver (2.1.1-1) ... Removing r-cran-fastmap (1.1.0-1) ... Removing r-cran-futile.logger (1.4.3-4) ... Removing r-cran-lambda.r (1.2.4-2) ... Removing r-cran-formatr (1.12-1) ... Removing r-cran-futile.options (1.0.1-3) ... Removing r-cran-gtable (0.3.1+dfsg-1) ... Removing r-cran-isoband (0.2.6-1) ... Removing r-cran-jsonlite (1.8.4+dfsg-1) ... Removing r-cran-labeling (0.4.2-1) ... Removing r-cran-promises (1.2.0.1+dfsg-1) ... Removing r-cran-later (1.3.0+dfsg-1+b1) ... Removing r-cran-magrittr (2.0.3-1) ... Removing r-cran-mass (7.3-58.1-1) ... Removing r-cran-mime (0.12-1+b1) ... Removing r-cran-nlme (3.1.161-1) ... Removing r-cran-pkgconfig (2.0.3-2) ... Removing r-cran-plogr (0.2.0-3) ... Removing r-cran-r6 (2.5.1-1) ... Removing r-cran-rappdirs (0.3.3-1) ... Removing r-cran-rcolorbrewer (1.1-3-1) ... Removing r-cran-sourcetools (0.1.7-3) ... Removing r-cran-sys (3.4.1-1) ... Removing r-cran-utf8 (1.2.2-1) ... Removing r-cran-viridislite (0.4.1-1) ... Removing r-cran-withr (2.5.0-1) ... Removing r-cran-xtable (1:1.8-4-2) ... Removing r-cran-matrix (1.5-3-1) ... Removing libjs-bootstrap (3.4.1+dfsg-3) ... Removing fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... dpkg: warning: while removing fonts-glyphicons-halflings, directory '/usr/share/fonts/truetype/glyphicons' not empty so not removed Removing r-cran-rcurl (1.98-1.9+dfsg-1) ... Removing r-cran-rcpp (1.0.9-1) ... Removing r-cran-bitops (1.0-7-1) ... Removing r-cran-vctrs (0.5.1-1) ... Removing r-cran-lifecycle (1.0.3+dfsg-1) ... Removing r-cran-glue (1.6.2-1) ... Removing r-cran-lattice (0.20-45-3) ... Removing r-cran-littler (0.3.17-1) ... Removing r-cran-pkgkitten (0.2.2-2) ... Removing r-cran-rlang (1.0.6-1) ... Removing r-cran-cli (3.4.1-1) ... Removing r-base-core (4.2.2.20221110-1) ... Removing libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... Removing libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... Removing libpango-1.0-0:amd64 (1.50.12+ds-1) ... Removing fontconfig (2.13.1-4.5) ... Removing libcairo2:amd64 (1.16.0-7) ... Removing libcurl4:amd64 (7.86.0-2) ... Removing libxt6:amd64 (1:1.2.1-1) ... Removing libthai0:amd64 (0.1.29-1) ... Removing libdatrie1:amd64 (0.2.13-2+b1) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-2+b1) ... Removing libnghttp2-14:amd64 (1.51.0-1) ... Removing libpaper-utils (1.1.28+b1) ... Removing libpaper1:amd64 (1.1.28+b1) ... Removing libpixman-1-0:amd64 (0.42.2-1) ... Removing libpsl5:amd64 (0.21.0-1.2) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-10) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Removing libsm6:amd64 (2:1.2.3-1) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing libthai-data (0.1.29-1) ... Removing libxcb-render0:amd64 (1.15-1) ... Removing libxcb-shm0:amd64 (1.15-1) ... Removing unzip (6.0-27) ... Removing xdg-utils (1.1.3-4.1) ... Removing zip (3.0-12) ... Removing libice6:amd64 (2:1.0.10-1) ... Removing python3-fonttools (4.37.4-1+b1) ... Removing python3-scipy (1.8.1-14+b1) ... Removing python3-pythran (0.11.0+ds-7) ... Removing python3-pil:amd64 (9.2.0-1.1+b1) ... Removing g++-12 (12.2.0-10) ... Removing python3-azure (20221101+git-2) ... Removing python3-msal-extensions (1.0.0-2) ... Removing python3-gi (3.42.2-3) ... Removing gir1.2-glib-2.0:amd64 (1.74.0-2) ... Removing libboost-dev:amd64 (1.74.0.3) ... Removing libboost1.74-dev:amd64 (1.74.0-18) ... Removing libstdc++-12-dev:amd64 (12.2.0-10) ... Removing python3-numpy (1:1.23.5-2) ... Removing libraqm0:amd64 (0.7.0-4) ... Removing libharfbuzz0b:amd64 (5.3.1-2) ... Removing python3-all-dev (3.10.6-3) ... Removing python3.11-dev (3.11.1-1) ... Removing python3-dev (3.10.6-3) ... Removing python3.10-dev (3.10.9-1) ... Removing libtiff5:amd64 (4.4.0-6) ... Removing libdeflate0:amd64 (1.14-1) ... Removing python3-all (3.10.6-3) ... Removing python3.11 (3.11.1-1) ... Removing python3.11-minimal (3.11.1-1) ... Removing libfribidi0:amd64 (1.0.8-2.1) ... Removing libopenblas-pthread-dev:amd64 (0.3.21+ds-3) ... Removing liblbfgsb0:amd64 (3.0+dfsg.3-11) ... Removing libopenblas0-pthread:amd64 (0.3.21+ds-3) ... Removing libgfortran5:amd64 (12.2.0-10) ... Removing libgirepository-1.0-1:amd64 (1.74.0-2) ... Removing libglib2.0-0:amd64 (2.74.3-1) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libimagequant0:amd64 (2.17.0-1) ... Removing libjbig0:amd64 (2.1-6.1) ... Removing libjpeg62-turbo:amd64 (1:2.1.2-1+b1) ... Removing libjs-sphinxdoc (5.3.0-2) ... Removing libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Removing libjs-underscore (1.13.4~dfsg+~1.11.4-2) ... dpkg: warning: while removing libjs-underscore, directory '/usr/share/javascript' not empty so not removed Removing liblcms2-2:amd64 (2.13.1-1+b1) ... Removing liblerc4:amd64 (4.0.0+ds-2) ... Removing libopenjp2-7:amd64 (2.5.0-1) ... Removing libpython3-all-dev:amd64 (3.10.6-3) ... Removing libpython3-dev:amd64 (3.10.6-3) ... Removing python3-aiohttp (3.8.3-1+b1) ... Removing python3-yarl (1.8.1-1+b1) ... Removing python3-distutils (3.10.8-1) ... Removing python3-tqdm (4.64.0-2) ... Removing python3-msrestazure (0.6.4-2) ... Removing python3-msrest (0.6.21-2) ... Removing python3-requests-oauthlib (1.3.0+ds-0.1) ... Removing python3-oauthlib (3.2.1-2) ... Removing libwebpmux3:amd64 (1.2.2-2+b2) ... Removing libwebpdemux2:amd64 (1.2.2-2+b2) ... Removing libwebp7:amd64 (1.2.2-2+b2) ... Removing libxsimd-dev:amd64 (8.1.0-7) ... Removing python3-lxml:amd64 (4.9.1-1+b2) ... Removing libxslt1.1:amd64 (1.1.35-1) ... Removing python3-yaml (6.0-3+b1) ... Removing libyaml-0-2:amd64 (0.2.5-1) ... Removing python3-adal (1.2.7-2) ... Removing python3-aiosignal (1.3.1-1) ... Removing python3-fs (2.4.16-2) ... Removing python3-appdirs (1.4.4-3) ... Removing python3-async-timeout (4.0.2-1) ... Removing python3-jsonschema (4.9.1-3) ... Removing python3-avro (1.11.1+dfsg-1) ... Removing python3-beniget (0.4.1-3) ... Removing python3-blinker (1.5-1) ... Removing python3-brotli (1.0.9-2+b5) ... Removing python3-msal (1.20.0-1) ... Removing python3-uamqp (1.5.3-1+b3) ... Removing python3-colorama (0.4.6-2) ... Removing python3-strictyaml (1.6.1-2) ... Removing python3-dateutil (2.8.2-1) ... Removing python3-decorator (5.1.1-3) ... Removing python3-frozenlist (1.3.3-1) ... Removing python3-gast (0.5.2-2) ... Removing python3-jwt (2.4.0-2) ... Removing python3-lib2to3 (3.10.8-1) ... Removing python3-lz4 (4.0.2+dfsg-1+b1) ... Removing python3-marshmallow (3.18.0-1) ... Removing python3-sympy (1.11.1-1) ... Removing python3-mpmath (1.2.1-2) ... Removing python3-multidict (6.0.2-1+b1) ... Removing python3-packaging (21.3-1.1) ... Removing python3-ply (3.11-5) ... Removing python3-portalocker (2.2.1-1) ... Removing python3-pyparsing (3.0.9-1) ... Removing python3-pyrsistent:amd64 (0.18.1-1+b2) ... Removing python3-ruamel.yaml (0.17.16-1) ... Removing python3-ruamel.yaml.clib:amd64 (0.2.7-1+b1) ... Removing python3-tz (2022.6-1) ... Removing python3-unicodedata2 (14.0.0+ds2-1+b1) ... Removing unicode-data (15.0.0-1) ... Removing python3-ufolib2 (0.13.1+dfsg1-1) ... Removing gcc-12 (12.2.0-10) ... Removing binutils (2.39.50.20221208-5) ... Removing binutils-x86-64-linux-gnu (2.39.50.20221208-5) ... Removing libgprofng0:amd64 (2.39.50.20221208-5) ... Removing libctf0:amd64 (2.39.50.20221208-5) ... Removing libbinutils:amd64 (2.39.50.20221208-5) ... Removing binutils-common:amd64 (2.39.50.20221208-5) ... Removing python3-pil.imagetk:amd64 (9.2.0-1.1+b1) ... Removing python3-tk:amd64 (3.10.8-1) ... Removing blt (2.5.3+dfsg-4.1) ... Removing python3-requests (2.28.1+dfsg-1) ... Removing cpp-12 (12.2.0-10) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Removing libtk8.6:amd64 (8.6.13-1) ... Removing libxft2:amd64 (2.3.6-1) ... Removing libfontconfig1:amd64 (2.13.1-4.5) ... Removing fontconfig-config (2.13.1-4.5) ... Removing fonts-dejavu-core (2.37-2) ... Removing python3-azure-storage (20221101+git-2) ... Removing libgcc-12-dev:amd64 (12.2.0-10) ... Removing libasan8:amd64 (12.2.0-10) ... Removing libatomic1:amd64 (12.2.0-10) ... Removing libfreetype6:amd64 (2.12.1+dfsg-3) ... Removing libbrotli1:amd64 (1.0.9-2+b5) ... Removing libpython3.11-dev:amd64 (3.11.1-1) ... Removing libpython3.10-dev:amd64 (3.10.9-1) ... Removing libexpat1-dev:amd64 (2.5.0-1) ... Removing libcc1-0:amd64 (12.2.0-10) ... Removing libctf-nobfd0:amd64 (2.39.50.20221208-5) ... Removing libpython3.11:amd64 (3.11.1-1) ... Removing libgomp1:amd64 (12.2.0-10) ... Removing libpython3.11-stdlib:amd64 (3.11.1-1) ... Removing libpython3.10:amd64 (3.10.9-1) ... Removing libxml2:amd64 (2.9.14+dfsg-1.1+b2) ... Removing libicu72:amd64 (72.1-3) ... Removing libisl23:amd64 (0.25-1) ... Removing libitm1:amd64 (12.2.0-10) ... Removing libjansson4:amd64 (2.14-2) ... Removing liblsan0:amd64 (12.2.0-10) ... Removing libmpc3:amd64 (1.2.1-2) ... Removing libmpfr6:amd64 (4.1.0-3) ... Removing libpng16-16:amd64 (1.6.39-2) ... Removing libpython3.11-minimal:amd64 (3.11.1-1) ... Removing libquadmath0:amd64 (12.2.0-10) ... Removing python3-cryptography (38.0.4-1) ... Removing libtcl8.6:amd64 (8.6.13+dfsg-1) ... Removing libtsan2:amd64 (12.2.0-10) ... Removing libubsan1:amd64 (12.2.0-10) ... Removing libxss1:amd64 (1:1.2.3-1) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing python3-attr (22.1.0-1) ... Removing python3-certifi (2022.9.24-1) ... Removing python3-cffi-backend:amd64 (1.15.1-4) ... Removing python3-chardet (5.1.0+dfsg-1) ... Removing python3-charset-normalizer (3.0.1-2) ... Removing python3-idna (3.3-1) ... Removing python3-isodate (0.6.1-1) ... Removing python3-pkg-resources (65.5.0-1.1) ... Removing python3-urllib3 (1.26.12-1) ... Removing python3-six (1.16.0-4) ... Removing python3-typing-extensions (4.3.0-2) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.17) ... Removing x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing ca-certificates (20211016) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libx11-6:amd64 (2:1.8.1-2) ... Removing libxcb1:amd64 (1.15-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.7-1) ... Removing zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Removing libc6-dev:amd64 (2.36-6) ... Removing libc-dev-bin (2.36-6) ... Removing libcrypt-dev:amd64 (1:4.4.33-1) ... Removing libnsl-dev:amd64 (1.3.0-2) ... Removing python3 (3.10.6-3) ... Removing libpython3-stdlib:amd64 (3.10.6-3) ... Removing python3.10 (3.10.9-1) ... Removing python3-minimal (3.10.6-3) ... Removing python3.10-minimal (3.10.9-1) ... Removing libtirpc-dev:amd64 (1.3.3+ds-1) ... Removing libx11-data (2:1.8.1-2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing linux-libc-dev:amd64 (6.0.12-1) ... Removing openssl (3.0.7-1) ... Removing rpcsvc-proto (1.4.3-1) ... Removing libexpat1:amd64 (2.5.0-1) ... Removing libpython3.10-stdlib:amd64 (3.10.9-1) ... find: '/usr/lib/python3': No such file or directory Removing libmpdec3:amd64 (2.5.1-2) ... Removing libncursesw6:amd64 (6.3+20220423-2) ... Removing libnsl2:amd64 (1.3.0-2) ... Removing libpython3.10-minimal:amd64 (3.10.9-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.2-1.2) ... Removing libsqlite3-0:amd64 (3.40.0-1) ... Removing media-types (8.0.0) ... Removing readline-common (8.2-1.2) ... Removing libtirpc3:amd64 (1.3.3+ds-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-1) ... Removing libkrb5-3:amd64 (1.20.1-1) ... Removing libk5crypto3:amd64 (1.20.1-1) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-1) ... Removing libssl3:amd64 (3.0.7-1) ... Removing libtirpc-common (1.3.3+ds-1) ... Processing triggers for libc-bin (2.36-6) ... 5m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'remove', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-12', 'cutadapt', 'default-jre', 'default-jre-headless', 'docutils-common', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++-', 'g++-12', 'gcc', 'gcc-12', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'libaec0:amd64', 'libapache-pom-java', 'libargs4j-java', 'libasan8:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbigwig0:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.74.0:amd64', 'libboost-iostreams1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgirepository-1.0-1:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhdf5-103-1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwloc15:amd64', 'libice6:amd64', 'libicu72:amd64', 'libimagequant0:amd64', 'libisal2', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', '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', 'libjs-underscore', 'libjson-perl', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblsan0:amd64', 'liblua5.3-0:amd64', 'libmjson-java', 'libmpc3:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.10:amd64', 'libpython3.10-dev:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libqhull-r8.0:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsis-base-java', 'libsis-base-jni', 'libsis-jhdf5-java', 'libsis-jhdf5-jni', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstaden-read14:amd64', 'libstdc++-12-dev:amd64', 'libsz2:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsimd-dev:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'linux-libc-dev:amd64', 'littler', 'media-types', 'megadepth', 'multiqc', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-alabaster', 'python3-all', 'python3-all-dev', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-babel', 'python3-bcrypt', 'python3-beniget', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-colorama', 'python3-coloredlogs', 'python3-colormath', 'python3-commonmark', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-dev', 'python3-distutils', 'python3-dnaio', 'python3-docutils', 'python3-fastjsonschema', 'python3-fonttools', 'python3-frozenlist', 'python3-fs', 'python3-future', 'python3-gast', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-idna', 'python3-imagesize', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markupsafe', 'python3-marshmallow', 'python3-matplotlib', 'python3-minimal', 'python3-mpmath', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpydoc', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pbr', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-plotly', 'python3-ply', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-pysam', 'python3-pythran', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-rich', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-scipy', 'python3-setuptools', 'python3-simplejson', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-strictyaml', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-tk:amd64', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-tz', 'python3-uamqp', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yarl', 'python3.10', 'python3.10-dev', 'python3.10-minimal', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-geneplotter', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4vectors', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-boot', 'r-cran-brio', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-cellranger', 'r-cran-class', 'r-cran-cli', 'r-cran-clipr', '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-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-forcats', 'r-cran-foreach', 'r-cran-foreign', 'r-cran-formatr', '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-haven', 'r-cran-highr', 'r-cran-hms', '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-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-maptools', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-openxlsx', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-png', 'r-cran-polynom', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-proc', 'r-cran-processx', 'r-cran-prodlim', 'r-cran-progress', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-ps', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-readr', 'r-cran-readxl', 'r-cran-recipes', 'r-cran-rematch', 'r-cran-rematch2', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rio', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstatix', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sp', 'r-cran-sparsem', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-vroom', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zip', 'readline-common', 'rpcsvc-proto', 'salmon', 'samtools', 'sensible-utils', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'tk8.6-blt2.5', 'trim-galore', 'ucf', 'unicode-data', 'unzip', 'x11-common', 'xdg-utils', 'xml-core', 'zip', 'zlib1g-dev:amd64', 'pigx-rnaseq'] 5m6.7s INFO: Running scripts post_remove 5m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_remove_exceptions'] 5m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_remove_exceptions'] 5m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--purge', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-12', 'cutadapt', 'default-jre', 'default-jre-headless', 'docutils-common', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++', 'g++-12', 'gcc', 'gcc-12', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'libaec0:amd64', 'libapache-pom-java', 'libargs4j-java', 'libasan8:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbigwig0:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.74.0:amd64', 'libboost-iostreams1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgirepository-1.0-1:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhdf5-103-1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwloc15:amd64', 'libice6:amd64', 'libicu72:amd64', 'libimagequant0:amd64', 'libisal2', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', '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', 'libjs-underscore', 'libjson-perl', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblsan0:amd64', 'liblua5.3-0:amd64', 'libmjson-java', 'libmpc3:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.10:amd64', 'libpython3.10-dev:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libqhull-r8.0:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsis-base-java', 'libsis-base-jni', 'libsis-jhdf5-java', 'libsis-jhdf5-jni', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstaden-read14:amd64', 'libstdc++-12-dev:amd64', 'libsz2:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsimd-dev:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'linux-libc-dev:amd64', 'littler', 'media-types', 'megadepth', 'multiqc', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-alabaster', 'python3-all', 'python3-all-dev', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-babel', 'python3-bcrypt', 'python3-beniget', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-colorama', 'python3-coloredlogs', 'python3-colormath', 'python3-commonmark', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-dev', 'python3-distutils', 'python3-dnaio', 'python3-docutils', 'python3-fastjsonschema', 'python3-fonttools', 'python3-frozenlist', 'python3-fs', 'python3-future', 'python3-gast', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-idna', 'python3-imagesize', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markupsafe', 'python3-marshmallow', 'python3-matplotlib', 'python3-minimal', 'python3-mpmath', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpydoc', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pbr', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-plotly', 'python3-ply', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-pysam', 'python3-pythran', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-rich', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-scipy', 'python3-setuptools', 'python3-simplejson', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-strictyaml', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-tk:amd64', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-tz', 'python3-uamqp', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yarl', 'python3.10', 'python3.10-dev', 'python3.10-minimal', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-geneplotter', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4vectors', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-boot', 'r-cran-brio', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-cellranger', 'r-cran-class', 'r-cran-cli', 'r-cran-clipr', '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-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-forcats', 'r-cran-foreach', 'r-cran-foreign', 'r-cran-formatr', '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-haven', 'r-cran-highr', 'r-cran-hms', '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-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-maptools', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-openxlsx', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-png', 'r-cran-polynom', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-proc', 'r-cran-processx', 'r-cran-prodlim', 'r-cran-progress', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-ps', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-readr', 'r-cran-readxl', 'r-cran-recipes', 'r-cran-rematch', 'r-cran-rematch2', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rio', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstatix', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sp', 'r-cran-sparsem', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-vroom', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zip', 'readline-common', 'rpcsvc-proto', 'salmon', 'samtools', 'sensible-utils', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'tk8.6-blt2.5', 'trim-galore', 'ucf', 'unicode-data', 'unzip', 'x11-common', 'xdg-utils', 'xml-core', 'zip', 'zlib1g-dev:amd64'] 5m7.8s DUMP: (Reading database ... 8731 files and directories currently installed.) 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Purging configuration files for r-base-core (4.2.2.20221110-1) ... dpkg: warning: ignoring request to remove r-bioc-annotate which isn't installed dpkg: warning: ignoring request to remove r-bioc-annotationdbi which isn't installed dpkg: warning: ignoring request to remove r-bioc-biobase which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocio which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocparallel which isn't installed dpkg: warning: ignoring request to remove r-bioc-biostrings which isn't installed dpkg: warning: ignoring request to remove r-bioc-delayedarray which isn't installed dpkg: warning: ignoring request to remove r-bioc-deseq2 which isn't installed dpkg: warning: ignoring request to remove r-bioc-geneplotter which isn't installed dpkg: warning: ignoring request to remove r-bioc-genomeinfodb which isn't installed dpkg: warning: ignoring request 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isn't installed dpkg: warning: ignoring request to remove r-cran-matrixstats which isn't installed dpkg: warning: ignoring request to remove r-cran-memoise which isn't installed dpkg: warning: ignoring request to remove r-cran-mgcv which isn't installed dpkg: warning: ignoring request to remove r-cran-mime which isn't installed dpkg: warning: ignoring request to remove r-cran-miniui which isn't installed dpkg: warning: ignoring request to remove r-cran-minqa which isn't installed dpkg: warning: ignoring request to remove r-cran-modelmetrics which isn't installed dpkg: warning: ignoring request to remove r-cran-munsell which isn't installed dpkg: warning: ignoring request to remove r-cran-nlme which isn't installed dpkg: warning: ignoring request to remove r-cran-nloptr which isn't installed dpkg: warning: ignoring request to remove r-cran-nnet which isn't installed dpkg: warning: ignoring request to remove r-cran-numderiv which isn't installed dpkg: warning: ignoring request to remove r-cran-openssl which isn't installed dpkg: warning: ignoring request to remove r-cran-openxlsx which isn't installed dpkg: warning: ignoring request to remove r-cran-parallelly which isn't installed dpkg: warning: ignoring request to remove r-cran-pbkrtest which isn't installed dpkg: warning: ignoring request to remove r-cran-pheatmap which isn't installed dpkg: warning: ignoring request to remove r-cran-pillar which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgconfig which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgkitten which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgload which isn't installed dpkg: warning: ignoring request to remove r-cran-plogr which isn't installed dpkg: warning: ignoring request to remove r-cran-plotly which isn't installed dpkg: warning: ignoring request to remove r-cran-plyr which isn't installed dpkg: warning: ignoring request to remove r-cran-png which isn't installed dpkg: warning: 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remove r-cran-reshape2 which isn't installed dpkg: warning: ignoring request to remove r-cran-restfulr which isn't installed dpkg: warning: ignoring request to remove r-cran-rio which isn't installed dpkg: warning: ignoring request to remove r-cran-rjson which isn't installed dpkg: warning: ignoring request to remove r-cran-rlang which isn't installed Purging configuration files for r-cran-rmarkdown (2.18+dfsg-1) ... dpkg: warning: ignoring request to remove r-cran-rpart which isn't installed dpkg: warning: ignoring request to remove r-cran-rprojroot which isn't installed dpkg: warning: ignoring request to remove r-cran-rsqlite which isn't installed dpkg: warning: ignoring request to remove r-cran-rstatix which isn't installed dpkg: warning: ignoring request to remove r-cran-sass which isn't installed dpkg: warning: ignoring request to remove r-cran-scales which isn't installed dpkg: warning: ignoring request to remove r-cran-shiny which isn't installed dpkg: warning: ignoring request to remove r-cran-shinyjs which isn't installed dpkg: warning: ignoring request to remove r-cran-snow which isn't installed dpkg: warning: ignoring request to remove r-cran-sourcetools which isn't installed dpkg: warning: ignoring request to remove r-cran-sp which isn't installed dpkg: warning: ignoring request to remove r-cran-sparsem which isn't installed dpkg: warning: ignoring request to remove r-cran-squarem which isn't installed dpkg: warning: ignoring request to remove r-cran-statmod which isn't installed dpkg: warning: ignoring request to remove r-cran-stringi which isn't installed dpkg: warning: ignoring request to remove r-cran-stringr which isn't installed dpkg: warning: ignoring request to remove r-cran-survival which isn't installed dpkg: warning: ignoring request to remove r-cran-sys which isn't installed dpkg: warning: ignoring request to remove r-cran-testthat which isn't installed dpkg: warning: ignoring request to remove r-cran-tibble which isn't installed dpkg: warning: ignoring request to remove r-cran-tidyr which isn't installed dpkg: warning: ignoring request to remove r-cran-tidyselect which isn't installed dpkg: warning: ignoring request to remove r-cran-timechange which isn't installed dpkg: warning: ignoring request to remove r-cran-timedate which isn't installed dpkg: warning: ignoring request to remove r-cran-tinytex which isn't installed dpkg: warning: ignoring request to remove r-cran-tzdb which isn't installed dpkg: warning: ignoring request to remove r-cran-utf8 which isn't installed dpkg: warning: ignoring request to remove r-cran-vctrs which isn't installed dpkg: warning: ignoring request to remove r-cran-viridislite which isn't installed dpkg: warning: ignoring request to remove r-cran-vroom which isn't installed dpkg: warning: ignoring request to remove r-cran-waldo which isn't installed dpkg: warning: ignoring request to remove r-cran-withr which isn't installed dpkg: warning: ignoring request to remove r-cran-xfun which isn't installed dpkg: warning: ignoring request to remove r-cran-xml which isn't installed dpkg: warning: ignoring request to remove r-cran-xtable which isn't installed dpkg: warning: ignoring request to remove r-cran-yaml which isn't installed dpkg: warning: ignoring request to remove r-cran-zip which isn't installed Purging configuration files for readline-common (8.2-1.2) ... dpkg: warning: ignoring request to remove rpcsvc-proto which isn't installed dpkg: warning: ignoring request to remove salmon which isn't installed dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for sgml-base (1.31) ... Purging configuration files for shared-mime-info (2.2-1) ... dpkg: warning: ignoring request to remove snakemake which isn't installed dpkg: warning: ignoring request to remove sphinx-common which isn't installed dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove trim-galore which isn't installed Purging configuration files for ucf (3.0043) ... dpkg: warning: ignoring request to remove unicode-data which isn't installed Purging configuration files for unzip (6.0-27) ... Purging configuration files for x11-common (1:7.7+23) ... dpkg: warning: ignoring request to remove xdg-utils which isn't installed Purging configuration files for xml-core (0.18+nmu1) ... dpkg: warning: ignoring request to remove zip which isn't installed dpkg: warning: ignoring request to remove zlib1g-dev which isn't installed 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--purge', 'adwaita-icon-theme', 'at-spi2-common', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'ca-certificates', 'ca-certificates-java', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'cpp', 'cpp-12', 'cutadapt', 'default-jre', 'default-jre-headless', 'docutils-common', 'fastp', 'fastqc', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lyx', 'fonts-mathjax', 'g++', 'g++-12', 'gcc', 'gcc-12', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hisat2', 'java-common', 'javascript-common', 'libaec0:amd64', 'libapache-pom-java', 'libargs4j-java', 'libasan8:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbigwig0:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost-filesystem1.74.0:amd64', 'libboost-iostreams1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfindbin-libs-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgif7:amd64', 'libgirepository-1.0-1:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhdf5-103-1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libhwloc15:amd64', 'libice6:amd64', 'libicu72:amd64', 'libimagequant0:amd64', 'libisal2', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', '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', 'libjs-underscore', 'libjson-perl', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblsan0:amd64', 'liblua5.3-0:amd64', 'libmjson-java', 'libmpc3:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.10:amd64', 'libpython3.10-dev:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libqhull-r8.0:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsis-base-java', 'libsis-base-jni', 'libsis-jhdf5-java', 'libsis-jhdf5-jni', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstaden-read14:amd64', 'libstdc++-12-dev:amd64', 'libsz2:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsimd-dev:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'linux-libc-dev:amd64', 'littler', 'media-types', 'megadepth', 'multiqc', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'pandoc', 'pandoc-data', 'pigz', 'python-babel-localedata', 'python-matplotlib-data', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-alabaster', 'python3-all', 'python3-all-dev', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-babel', 'python3-bcrypt', 'python3-beniget', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-click', 'python3-colorama', 'python3-coloredlogs', 'python3-colormath', 'python3-commonmark', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-cutadapt', 'python3-cycler', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-deeptools', 'python3-deeptoolsintervals', 'python3-dev', 'python3-distutils', 'python3-dnaio', 'python3-docutils', 'python3-fastjsonschema', 'python3-fonttools', 'python3-frozenlist', 'python3-fs', 'python3-future', 'python3-gast', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-htseq', 'python3-humanfriendly', 'python3-idna', 'python3-imagesize', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lxml:amd64', 'python3-lz4', 'python3-lzstring', 'python3-markdown', 'python3-markupsafe', 'python3-marshmallow', 'python3-matplotlib', 'python3-minimal', 'python3-mpmath', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-networkx', 'python3-numpy', 'python3-numpydoc', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pbr', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-plotly', 'python3-ply', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py2bit', 'python3-pybigwig', 'python3-pygments', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-pysam', 'python3-pythran', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-rich', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-scipy', 'python3-setuptools', 'python3-simplejson', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-snowballstemmer', 'python3-spectra', 'python3-sphinx', 'python3-stopit', 'python3-strictyaml', 'python3-sympy', 'python3-tabulate', 'python3-tenacity', 'python3-tk:amd64', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-tz', 'python3-uamqp', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wrapt', 'python3-xopen', 'python3-yaml', 'python3-yarl', 'python3.10', 'python3.10-dev', 'python3.10-minimal', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-deseq2', 'r-bioc-geneplotter', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4vectors', 'r-bioc-summarizedexperiment', 'r-bioc-tximport', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-backports', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-boot', 'r-cran-brio', 'r-cran-broom', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-car', 'r-cran-cardata', 'r-cran-caret', 'r-cran-cellranger', 'r-cran-class', 'r-cran-cli', 'r-cran-clipr', '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-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-dt', 'r-cran-e1071', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-fontawesome', 'r-cran-forcats', 'r-cran-foreach', 'r-cran-foreign', 'r-cran-formatr', '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-haven', 'r-cran-highr', 'r-cran-hms', '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-locfit', 'r-cran-lubridate', 'r-cran-magrittr', 'r-cran-maptools', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixmodels', 'r-cran-matrixstats', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-miniui', 'r-cran-minqa', 'r-cran-modelmetrics', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-nloptr', 'r-cran-nnet', 'r-cran-numderiv', 'r-cran-openssl', 'r-cran-openxlsx', 'r-cran-parallelly', 'r-cran-pbkrtest', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-plotly', 'r-cran-plyr', 'r-cran-png', 'r-cran-polynom', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-proc', 'r-cran-processx', 'r-cran-prodlim', 'r-cran-progress', 'r-cran-progressr', 'r-cran-promises', 'r-cran-proxy', 'r-cran-ps', 'r-cran-purrr', 'r-cran-quantreg', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-readr', 'r-cran-readxl', 'r-cran-recipes', 'r-cran-rematch', 'r-cran-rematch2', 'r-cran-reshape2', 'r-cran-restfulr', 'r-cran-rio', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rpart', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstatix', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-shinyjs', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-sp', 'r-cran-sparsem', 'r-cran-squarem', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-timechange', 'r-cran-timedate', 'r-cran-tinytex', 'r-cran-tzdb', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-vroom', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xtable', 'r-cran-yaml', 'r-cran-zip', 'readline-common', 'rpcsvc-proto', 'salmon', 'samtools', 'sensible-utils', 'sgml-base', 'shared-mime-info', 'snakemake', 'sphinx-common', 'tk8.6-blt2.5', 'trim-galore', 'ucf', 'unicode-data', 'unzip', 'x11-common', 'xdg-utils', 'xml-core', 'zip', 'zlib1g-dev:amd64'] 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--purge', 'pigx-rnaseq'] 5m7.8s DUMP: dpkg: warning: ignoring request to remove pigx-rnaseq which isn't installed 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--purge', 'pigx-rnaseq'] 5m7.8s INFO: Running scripts post_purge 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_purge_exceptions'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_purge_exceptions'] 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--purge', '--pending'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--purge', '--pending'] 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--remove', '--pending'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg', '--remove', '--pending'] 5m7.8s INFO: Running scripts post_test 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_test_exceptions'] 5m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'tmp/scripts/post_test_exceptions'] 5m7.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 5m8.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 5m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg-divert', '--list'] 5m8.3s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 5m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'dpkg-divert', '--list'] 5m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'clean'] 5m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn', 'apt-get', 'clean'] 5m8.4s DEBUG: Recording chroot state 5m9.0s INFO: Warning: Package purging left files on system: /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: fonts-glyphicons-halflings, fonts-mathjax, fonts-lyx, fonts-font-awesome, fonts-dejavu-core /usr/share/fonts/.uuid not owned /usr/share/fonts/opentype/ owned by: fonts-mathjax, fonts-font-awesome /usr/share/fonts/opentype/.uuid not owned /usr/share/fonts/opentype/font-awesome/ owned by: fonts-font-awesome /usr/share/fonts/opentype/font-awesome/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-glyphicons-halflings, fonts-lyx, fonts-font-awesome, fonts-dejavu-core /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/dejavu/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/dejavu/.uuid not owned /usr/share/fonts/truetype/font-awesome/ owned by: fonts-font-awesome /usr/share/fonts/truetype/font-awesome/.uuid not owned /usr/share/fonts/truetype/glyphicons/ owned by: fonts-glyphicons-halflings /usr/share/fonts/truetype/glyphicons/.uuid not owned /usr/share/fonts/truetype/lyx/ owned by: fonts-lyx /usr/share/fonts/truetype/lyx/.uuid not owned /usr/share/javascript/ owned by: libjs-bootstrap, node-normalize.css, node-html5shiv, libjs-twitter-bootstrap-datepicker, libjs-sphinxdoc, libjs-underscore, libjs-prettify, libjs-modernizr, libjs-mathjax, libjs-json, libjs-jquery-ui, libjs-jquery-tablesorter, libjs-jquery-selectize.js, libjs-microplugin.js, libjs-sifter.js, libjs-jquery-metadata, libjs-jquery-datatables-extensions, libjs-jquery-datatables, libjs-jquery, libjs-highlight.js, libjs-es5-shim, libjs-d3, libjs-bootstrap4, libjs-popper.js, javascript-common, fonts-mathjax, fonts-font-awesome /usr/share/javascript/mathjax/ owned by: libjs-mathjax, fonts-mathjax /usr/share/javascript/mathjax/fonts/ owned by: fonts-mathjax /usr/share/javascript/mathjax/fonts/HTML-CSS/ owned by: fonts-mathjax /usr/share/javascript/mathjax/fonts/HTML-CSS/TeX/ owned by: fonts-mathjax /usr/share/javascript/mathjax/fonts/HTML-CSS/TeX/otf/ owned by: fonts-mathjax /usr/share/javascript/mathjax/fonts/HTML-CSS/TeX/otf/.uuid not owned 5m9.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/shm'] 5m9.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/shm'] 5m9.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/console'] 5m9.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/console'] 5m9.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/ptmx'] 5m9.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/ptmx'] 5m9.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/pts'] 5m9.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/dev/pts'] 5m9.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/proc'] 5m9.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn/proc'] 5m9.6s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 5m9.7s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_yf1hfyn'] 5m9.7s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp_yf1hfyn 5m9.7s INFO: PASS: Upgrading between Debian distributions. 5m9.7s INFO: PASS: All tests. 5m9.7s INFO: piuparts run ends. ret=0 End: 2022-12-20 05:10:12 GMT