Start: 2024-10-04 11:12:57 GMT [oldstable] Package: r-bioc-purecn Version: 1.20.0+dfsg-3 Installed-Size: 8174 Maintainer: Debian R Packages Maintainers Architecture: all Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-bioc-dnacopy, r-bioc-variantannotation (>= 1.14.1), r-bioc-genomicranges (>= 1.20.3), r-bioc-iranges (>= 2.2.1), r-cran-rcolorbrewer, r-bioc-s4vectors, r-cran-data.table, r-bioc-summarizedexperiment, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-bioc-rsamtools, r-bioc-biostrings, r-bioc-biocgenerics, r-bioc-rtracklayer, r-cran-ggplot2, r-cran-gridextra, r-cran-futile.logger, r-cran-vgam, r-bioc-rhdf5, r-cran-matrix Recommends: r-cran-testthat Suggests: r-bioc-biocparallel, r-bioc-biocstyle, r-cran-pscbs, r-cran-covr, r-cran-knitr, r-cran-optparse, r-bioc-org.hs.eg.db, r-cran-jsonlite, r-cran-rmarkdown Description: copy number calling and SNV classification using targeted short read sequencing Homepage: https://bioconductor.org/packages/PureCN/ Description-md5: 8e04360f54e8e8be0dd9281fc8ab5c7b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-purecn/r-bioc-purecn_1.20.0+dfsg-3_all.deb Size: 5304444 MD5sum: 2b0c26ac57680bd3e5885fcbb16d7a32 SHA256: 675a310b8cda855c6b19a4efe05cb04cf899df0cfc833fbed1775a5a90af3dfd [stable] Package: r-bioc-purecn Version: 2.4.0+dfsg-1 Installed-Size: 6925 Maintainer: Debian R Packages Maintainers Architecture: all Depends: r-base-core (>= 4.2.2.20221110-1), r-api-4.0, r-api-bioc-3.16, r-bioc-dnacopy, r-bioc-variantannotation (>= 1.14.1), r-bioc-genomicranges (>= 1.20.3), r-bioc-iranges (>= 2.2.1), r-cran-rcolorbrewer, r-bioc-s4vectors, r-cran-data.table, r-bioc-summarizedexperiment, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-bioc-rsamtools, r-bioc-biobase, r-bioc-biostrings, r-bioc-biocgenerics, r-bioc-rtracklayer, r-cran-ggplot2, r-cran-gridextra, r-cran-futile.logger, r-cran-vgam, r-cran-mclust, r-bioc-rhdf5, r-cran-matrix Suggests: r-bioc-biocparallel, r-bioc-biocstyle, r-cran-pscbs, r-cran-r.utils, r-cran-covr, r-cran-knitr, r-cran-optparse, r-bioc-org.hs.eg.db, r-cran-jsonlite, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Description: copy number calling and SNV classification using targeted short read sequencing Homepage: https://bioconductor.org/packages/PureCN/ Description-md5: 8e04360f54e8e8be0dd9281fc8ab5c7b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-purecn/r-bioc-purecn_2.4.0+dfsg-1_all.deb Size: 6025432 MD5sum: 63310446847d2c1ec0b260bf4a1f8c41 SHA256: 6fca9f573ba611b541592defbfa086a288b8b048dbddd6652560a56050a14dca [testing] Package: r-bioc-purecn Version: 2.10.0+dfsg-1 Installed-Size: 6925 Maintainer: Debian R Packages Maintainers Architecture: all Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-dnacopy (>= 1.78.0), r-bioc-variantannotation (>= 1.50.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-iranges (>= 2.2.1), r-cran-rcolorbrewer, r-bioc-s4vectors (>= 0.42.1), r-cran-data.table, r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-genomeinfodb (>= 1.40.1), r-bioc-genomicfeatures (>= 1.56.0), r-bioc-rsamtools (>= 2.20.0), r-bioc-biobase (>= 2.64.0), r-bioc-biostrings (>= 2.72.1), r-bioc-biocgenerics (>= 0.50.0), r-bioc-rtracklayer (>= 1.64.0), r-cran-ggplot2, r-cran-gridextra, r-cran-futile.logger, r-cran-vgam, r-cran-mclust, r-bioc-rhdf5 (>= 2.48.0), r-cran-matrix Suggests: r-bioc-biocparallel, r-bioc-biocstyle, r-cran-pscbs, r-cran-r.utils, r-cran-covr, r-cran-knitr, r-cran-optparse, r-bioc-org.hs.eg.db, r-cran-jsonlite, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Description: copy number calling and SNV classification using targeted short read sequencing Homepage: https://bioconductor.org/packages/PureCN/ Description-md5: 8e04360f54e8e8be0dd9281fc8ab5c7b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-purecn/r-bioc-purecn_2.10.0+dfsg-1_all.deb Size: 6024628 MD5sum: 447e2f3dee396559743640986fea1844 SHA256: 4209ecfa239c84bca37df7143dbdb2469844be5d397482f95d63e9d7b2898c10 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/bullseye-merged-usr_amd64.tar.gz -d oldstable -d stable -d testing -B /srv/piuparts.debian.org/slave/refchroot/oldstable22testing/reference-chroot-metadata.dat --apt r-bioc-purecn=2.10.0+dfsg-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 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d oldstable -d stable -d testing -B /srv/piuparts.debian.org/slave/refchroot/oldstable22testing/reference-chroot-metadata.dat --apt r-bioc-purecn=2.10.0+dfsg-1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-32-amd64 #1 SMP Debian 5.10.223-1 (2024-08-10) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpypu09s1d 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpypu09s1d 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/proc'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/proc'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/shm'] 0m0.6s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/shm'] 0m0.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m0.6s DEBUG: Created policy-rc.d and chmodded it. 0m0.6s DEBUG: Created resolv.conf. 0m0.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpypu09s1d/tmp/scripts/ 0m0.6s INFO: Running scripts post_chroot_unpack 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'update'] 0m1.3s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m1.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'update'] 0m1.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-yf', 'dist-upgrade'] 0m1.8s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-yf', 'dist-upgrade'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.1s DUMP: f58ca9ba0b3223edf5b7797c101a5448 - 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.1s INFO: Running scripts post_setup 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_dummy_users'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_dummy_users'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_forbid_home'] 0m3.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_forbid_home'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.2s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_minimize'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_minimize'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_zz_backports'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_setup_zz_backports'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.2s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u11 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u2 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u11 install ok installed libc6:amd64 libc6 2.31-13+deb11u11 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u5 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u5 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u5 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u5 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u5 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u2 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u5 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u5 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u2 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u2 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1+deb11u1 install ok installed tzdata tzdata 2024a-0+deb11u1 install ok installed util-linux util-linux 2.36.1-8+deb11u2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.2s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/oldstable22testing/reference-chroot-metadata.dat 0m3.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 0m3.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 0m3.7s INFO: Running scripts is_testable 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/is_testable_uninstallable'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/is_testable_uninstallable'] 0m3.7s INFO: Running scripts pre_test 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_test_exceptions'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_test_exceptions'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_test_root_password'] 0m3.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_test_root_password'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-purecn'] 0m3.9s DUMP: Package: r-bioc-purecn Version: 1.20.0+dfsg-3 Installed-Size: 8174 Maintainer: Debian R Packages Maintainers Architecture: all Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-bioc-dnacopy, r-bioc-variantannotation (>= 1.14.1), r-bioc-genomicranges (>= 1.20.3), r-bioc-iranges (>= 2.2.1), r-cran-rcolorbrewer, r-bioc-s4vectors, r-cran-data.table, r-bioc-summarizedexperiment, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-bioc-rsamtools, r-bioc-biostrings, r-bioc-biocgenerics, r-bioc-rtracklayer, r-cran-ggplot2, r-cran-gridextra, r-cran-futile.logger, r-cran-vgam, r-bioc-rhdf5, r-cran-matrix Recommends: r-cran-testthat Suggests: r-bioc-biocparallel, r-bioc-biocstyle, r-cran-pscbs, r-cran-covr, r-cran-knitr, r-cran-optparse, r-bioc-org.hs.eg.db, r-cran-jsonlite, r-cran-rmarkdown Description-en: copy number calling and SNV classification using targeted short read sequencing This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide variants (SNVs) by somatic status and clonality. PureCN is designed for targeted short read sequencing data, integrates well with standard somatic variant detection and copy number pipelines, and has support for tumor samples without matching normal samples. Description-md5: 8e04360f54e8e8be0dd9281fc8ab5c7b Homepage: https://bioconductor.org/packages/PureCN/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-purecn/r-bioc-purecn_1.20.0+dfsg-3_all.deb Size: 5304444 MD5sum: 2b0c26ac57680bd3e5885fcbb16d7a32 SHA256: 675a310b8cda855c6b19a4efe05cb04cf899df0cfc833fbed1775a5a90af3dfd 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-purecn'] 0m3.9s INFO: apt-cache knows about the following packages: r-bioc-purecn 0m3.9s INFO: Running scripts pre_install 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 0m4.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.11,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 0m4.0s DUMP: r-bioc-purecn: Installed: (none) Candidate: 1.20.0+dfsg-3 Version table: 1.20.0+dfsg-3 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn'] 0m50.5s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core hdf5-helpers libaec-dev libaec0 libasan6 libatomic1 libblas3 libblosc1 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libice6 libicu67 libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery liblapack3 libldap-2.4-2 liblsan0 libmd0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsnappy1v5 libssh2-1 libstdc++-10-dev libsz2 libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-dev libtk8.6 libtsan0 libubsan1 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6 linux-libc-dev littler node-html5shiv openssl r-base-core r-bioc-annotationdbi r-bioc-biobase r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-dnacopy r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-variantannotation r-bioc-xvector r-bioc-zlibbioc r-cran-askpass r-cran-assertthat r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-brio r-cran-cachem r-cran-callr r-cran-cli r-cran-colorspace r-cran-crayon r-cran-curl r-cran-data.table r-cran-dbi r-cran-dbplyr r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-hms r-cran-httr r-cran-isoband r-cran-jsonlite r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-munsell r-cran-nlme r-cran-openssl r-cran-pillar r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-praise r-cran-prettyunits r-cran-processx r-cran-progress r-cran-ps r-cran-purrr r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-rematch2 r-cran-rlang r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-scales r-cran-snow r-cran-stringi r-cran-stringr r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyselect r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml r-cran-xml2 readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev Suggested packages: 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 manpages-dev libhdf5-doc libstdc++-10-doc tcl8.6 tk8.6 nodejs elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-bioc-org.hs.eg.db r-bioc-graph r-bioc-biocstyle r-cran-knitr r-bioc-all r-cran-rmarkdown r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-foreach r-cran-bbmisc r-bioc-shortread r-cran-codetools r-cran-biocmanager r-cran-runit r-bioc-hdf5array r-bioc-genefilter r-bioc-delayedmatrixstats r-bioc-edger r-bioc-ensembldb r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq r-bioc-sparsematrixstats r-cran-pscbs r-cran-covr r-cran-optparse r-cran-tinytest r-bioc-limma r-cran-roxygen2 r-cran-htmlwidgets r-cran-prettycode r-cran-kernsmooth r-cran-kernlab r-cran-mvtnorm r-cran-vcd r-cran-shiny r-cran-shinyjs r-cran-png r-cran-jpeg r-cran-viridis r-cran-r.utils r-cran-xts r-cran-zoo r-cran-yaml r-cran-rmysql r-cran-bench r-cran-broom r-cran-rpostgresql r-cran-unitizer r-cran-hmisc r-cran-maps r-cran-maptools r-cran-multcomp r-cran-rpart r-cran-sf r-cran-svglite r-cran-forcats r-cran-lubridate r-cran-httpuv r-cran-readr r-cran-magick r-cran-plyr r-cran-getopt r-cran-base64enc r-cran-cpp11 r-cran-inline r-cran-gh r-cran-rvest r-cran-dichromat r-cran-rmpi r-cran-rsprng r-cran-rlecuyer r-cran-mockery r-cran-usethis r-cran-formattable r-cran-htmltools r-cran-tidyr r-cran-zeallot readline-doc Recommended packages: manpages manpages-dev libc-devtools libglib2.0-data shared-mime-info xdg-user-dirs javascript-common libldap-common publicsuffix libsasl2-modules r-recommended r-base-dev r-doc-html r-bioc-go.db r-cran-runit r-cran-batchjobs r-cran-doparallel r-cran-batchtools r-cran-rmpi r-bioc-biovizbase r-bioc-shortread r-bioc-annotate r-cran-knitr r-cran-rmarkdown r-bioc-biocstyle r-bioc-snpstats r-cran-cliapp r-cran-mockery r-cran-httpuv r-cran-webutils r-cran-rmysql r-cran-rpostgresql r-cran-tidyr r-cran-testit r-cran-codetools r-cran-survival r-cran-sp r-cran-mapproj r-cran-hexbin r-cran-vdiffr r-cran-quantreg r-cran-sodium r-cran-lubridate r-cran-mockr r-cran-dbitest r-cran-htmltools r-cran-htmlwidgets libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core hdf5-helpers libaec-dev libaec0 libasan6 libatomic1 libblas3 libblosc1 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libice6 libicu67 libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery liblapack3 libldap-2.4-2 liblsan0 libmd0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsnappy1v5 libssh2-1 libstdc++-10-dev libsz2 libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-dev libtk8.6 libtsan0 libubsan1 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6 linux-libc-dev littler node-html5shiv openssl r-base-core r-bioc-annotationdbi r-bioc-biobase r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-dnacopy r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-purecn r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-variantannotation r-bioc-xvector r-bioc-zlibbioc r-cran-askpass r-cran-assertthat r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-brio r-cran-cachem r-cran-callr r-cran-cli r-cran-colorspace r-cran-crayon r-cran-curl r-cran-data.table r-cran-dbi r-cran-dbplyr r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-hms r-cran-httr r-cran-isoband r-cran-jsonlite r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-munsell r-cran-nlme r-cran-openssl r-cran-pillar r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-praise r-cran-prettyunits r-cran-processx r-cran-progress r-cran-ps r-cran-purrr r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-rematch2 r-cran-rlang r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-scales r-cran-snow r-cran-stringi r-cran-stringr r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyselect r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml r-cran-xml2 readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 226 newly installed, 0 to remove and 0 not upgraded. Need to get 219 MB of archives. After this operation, 580 MB of additional disk space will be used. 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http://deb.debian.org/debian bullseye/main amd64 libcrypt-dev amd64 1:4.4.18-4 [104 kB] Get:34 http://deb.debian.org/debian bullseye/main amd64 libtirpc-dev amd64 1.3.1-1+deb11u1 [191 kB] Get:35 http://deb.debian.org/debian bullseye/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:36 http://deb.debian.org/debian bullseye/main amd64 libc6-dev amd64 2.31-13+deb11u11 [2361 kB] Get:37 http://deb.debian.org/debian bullseye/main amd64 libstdc++-10-dev amd64 10.2.1-6 [1741 kB] Get:38 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get:39 http://deb.debian.org/debian bullseye/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get:40 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get:41 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1+deb11u1 [108 kB] Get:42 http://deb.debian.org/debian bullseye/main amd64 libpixman-1-0 amd64 0.40.0-1.1~deb11u1 [543 kB] Get:43 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 libx11-data all 2:1.7.2-1+deb11u2 [311 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 libx11-6 amd64 2:1.7.2-1+deb11u2 [772 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 libxcb-render0 amd64 1.14-3 [111 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:52 http://deb.debian.org/debian bullseye/main amd64 libcairo2 amd64 1.16.0-5 [694 kB] Get:53 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1+deb11u1 [69.1 kB] Get:54 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1+deb11u1 [106 kB] Get:55 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3+deb11u1 [232 kB] Get:56 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1+deb11u1 [77.2 kB] Get:57 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:58 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:59 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2+deb11u1 [156 kB] Get:60 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u13 [347 kB] Get:61 http://deb.debian.org/debian bullseye/main amd64 libdatrie1 amd64 0.2.13-1 [42.7 kB] Get:62 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get:63 http://deb.debian.org/debian bullseye/main amd64 libfribidi0 amd64 1.0.8-2+deb11u1 [64.9 kB] Get:64 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:65 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1+deb11u4 [1377 kB] Get:66 http://deb.debian.org/debian bullseye/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:67 http://deb.debian.org/debian bullseye/main amd64 libharfbuzz0b amd64 2.7.4-1 [1471 kB] Get:68 http://deb.debian.org/debian bullseye/main amd64 libhdf5-103-1 amd64 1.10.6+repack-4+deb11u1 [1189 kB] Get:69 http://deb.debian.org/debian bullseye/main amd64 libhdf5-cpp-103-1 amd64 1.10.6+repack-4+deb11u1 [141 kB] Get:70 http://deb.debian.org/debian bullseye/main amd64 libhdf5-fortran-102 amd64 1.10.6+repack-4+deb11u1 [105 kB] Get:71 http://deb.debian.org/debian bullseye/main amd64 libhdf5-hl-100 amd64 1.10.6+repack-4+deb11u1 [81.8 kB] Get:72 http://deb.debian.org/debian bullseye/main amd64 libhdf5-hl-fortran-100 amd64 1.10.6+repack-4+deb11u1 [56.8 kB] Get:73 http://deb.debian.org/debian bullseye/main amd64 libhdf5-hl-cpp-100 amd64 1.10.6+repack-4+deb11u1 [37.7 kB] Get:74 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2+deb11u2 [191 kB] Get:75 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get:76 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo-dev amd64 1:2.0.6-4 [278 kB] Get:77 http://deb.debian.org/debian bullseye/main amd64 libjpeg-dev amd64 1:2.0.6-4 [67.8 kB] Get:78 http://deb.debian.org/debian bullseye/main amd64 libhdf5-dev amd64 1.10.6+repack-4+deb11u1 [2438 kB] Get:79 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get:80 http://deb.debian.org/debian bullseye/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:81 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get:82 http://deb.debian.org/debian bullseye/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:83 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get:84 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get:85 http://deb.debian.org/debian bullseye/main amd64 libthai-data all 0.1.28-3 [170 kB] Get:86 http://deb.debian.org/debian bullseye/main amd64 libthai0 amd64 0.1.28-3 [54.2 kB] Get:87 http://deb.debian.org/debian bullseye/main amd64 libpango-1.0-0 amd64 1.46.2-3 [191 kB] Get:88 http://deb.debian.org/debian bullseye/main amd64 libpangoft2-1.0-0 amd64 1.46.2-3 [62.2 kB] Get:89 http://deb.debian.org/debian bullseye/main amd64 libpangocairo-1.0-0 amd64 1.46.2-3 [50.6 kB] Get:90 http://deb.debian.org/debian bullseye/main amd64 libpaper1 amd64 1.1.28+b1 [21.6 kB] Get:91 http://deb.debian.org/debian bullseye/main amd64 libpaper-utils amd64 1.1.28+b1 [18.3 kB] Get:92 http://deb.debian.org/debian bullseye/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:93 http://deb.debian.org/debian bullseye/main amd64 libtcl8.6 amd64 8.6.11+dfsg-1 [1018 kB] Get:94 http://deb.debian.org/debian bullseye/main amd64 libwebp6 amd64 0.6.1-2.1+deb11u2 [259 kB] Get:95 http://deb.debian.org/debian bullseye/main amd64 libtiff5 amd64 4.2.0-1+deb11u5 [290 kB] Get:96 http://deb.debian.org/debian bullseye/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:97 http://deb.debian.org/debian bullseye/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:98 http://deb.debian.org/debian bullseye/main amd64 libtk8.6 amd64 8.6.11-2 [780 kB] Get:99 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7+deb11u4 [693 kB] Get:100 http://deb.debian.org/debian bullseye/main amd64 libxt6 amd64 1:1.2.0-1 [189 kB] Get:101 http://deb.debian.org/debian bullseye/main amd64 zip amd64 3.0-12 [232 kB] Get:102 http://deb.debian.org/debian bullseye/main amd64 unzip amd64 6.0-26+deb11u1 [172 kB] Get:103 http://deb.debian.org/debian bullseye/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:104 http://deb.debian.org/debian bullseye/main amd64 r-base-core amd64 4.0.4-1 [25.1 MB] Get:105 http://deb.debian.org/debian bullseye/main amd64 r-cran-littler amd64 0.3.12-1 [95.9 kB] Get:106 http://deb.debian.org/debian bullseye/main amd64 littler all 0.3.12-1 [15.6 kB] Get:107 http://deb.debian.org/debian bullseye/main amd64 node-html5shiv all 3.7.3+dfsg-3 [12.9 kB] Get:108 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocgenerics all 0.36.0-1 [648 kB] Get:109 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biobase amd64 2.50.0-1 [2229 kB] Get:110 http://deb.debian.org/debian bullseye/main amd64 r-bioc-s4vectors amd64 0.28.1-1 [2027 kB] Get:111 http://deb.debian.org/debian bullseye/main amd64 r-bioc-iranges amd64 2.24.1-1 [2202 kB] Get:112 http://deb.debian.org/debian bullseye/main amd64 r-cran-dbi all 1.1.1-1 [619 kB] Get:113 http://deb.debian.org/debian bullseye/main amd64 r-cran-bit amd64 4.0.4+dfsg-1 [422 kB] Get:114 http://deb.debian.org/debian bullseye/main amd64 r-cran-bit64 amd64 4.0.5-1 [463 kB] Get:115 http://deb.debian.org/debian bullseye/main amd64 r-cran-rlang amd64 0.4.10-1 [1176 kB] Get:116 http://deb.debian.org/debian bullseye/main amd64 r-cran-ellipsis amd64 0.3.1-1 [31.7 kB] Get:117 http://deb.debian.org/debian bullseye/main amd64 r-cran-digest amd64 0.6.27-1 [192 kB] Get:118 http://deb.debian.org/debian bullseye/main amd64 r-cran-glue amd64 1.4.2-1 [138 kB] Get:119 http://deb.debian.org/debian bullseye/main amd64 r-cran-vctrs amd64 0.3.6-1 [1107 kB] Get:120 http://deb.debian.org/debian bullseye/main amd64 r-cran-blob all 1.2.1-2 [49.1 kB] Get:121 http://deb.debian.org/debian bullseye/main amd64 r-cran-fastmap amd64 1.1.0-1 [64.7 kB] Get:122 http://deb.debian.org/debian bullseye/main amd64 r-cran-cachem amd64 1.0.3-1 [61.4 kB] Get:123 http://deb.debian.org/debian bullseye/main amd64 r-cran-memoise all 2.0.0-1 [52.9 kB] Get:124 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgconfig all 2.0.3-2 [19.6 kB] Get:125 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgkitten all 0.2.1-1 [26.5 kB] Get:126 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcpp amd64 1.0.6-1 [2035 kB] Get:127 http://deb.debian.org/debian bullseye/main amd64 r-cran-bh all 1.74.0-1 [5196 B] Get:128 http://deb.debian.org/debian bullseye/main amd64 r-cran-plogr all 0.2.0-3 [14.9 kB] Get:129 http://deb.debian.org/debian bullseye/main amd64 r-cran-rsqlite amd64 2.2.3-1 [1035 kB] Get:130 http://deb.debian.org/debian bullseye/main amd64 r-bioc-annotationdbi all 1.52.0-1 [4707 kB] Get:131 http://deb.debian.org/debian bullseye/main amd64 r-cran-assertthat all 0.2.1-2 [56.5 kB] Get:132 http://deb.debian.org/debian bullseye/main amd64 r-cran-generics all 0.1.0-1 [73.5 kB] Get:133 http://deb.debian.org/debian bullseye/main amd64 r-cran-lifecycle all 0.2.0-2 [93.2 kB] Get:134 http://deb.debian.org/debian bullseye/main amd64 r-cran-magrittr amd64 2.0.1-1 [198 kB] Get:135 http://deb.debian.org/debian bullseye/main amd64 r-cran-r6 all 2.5.0-1 [104 kB] Get:136 http://deb.debian.org/debian bullseye/main amd64 r-cran-cli all 2.3.0-1 [480 kB] Get:137 http://deb.debian.org/debian bullseye/main amd64 r-cran-crayon all 1.4.0-1 [143 kB] Get:138 http://deb.debian.org/debian bullseye/main amd64 r-cran-fansi amd64 0.4.2-1 [345 kB] Get:139 http://deb.debian.org/debian bullseye/main amd64 r-cran-utf8 amd64 1.1.4-2 [131 kB] Get:140 http://deb.debian.org/debian bullseye/main amd64 r-cran-pillar all 1.4.7-1 [227 kB] Get:141 http://deb.debian.org/debian bullseye/main amd64 r-cran-tibble amd64 3.0.6+dfsg-1 [416 kB] Get:142 http://deb.debian.org/debian bullseye/main amd64 r-cran-purrr amd64 0.3.4-1+b1 [398 kB] Get:143 http://deb.debian.org/debian bullseye/main amd64 r-cran-tidyselect amd64 1.1.0+dfsg-1 [192 kB] Get:144 http://deb.debian.org/debian bullseye/main amd64 r-cran-dplyr amd64 1.0.4-1 [1143 kB] Get:145 http://deb.debian.org/debian bullseye/main amd64 r-cran-withr all 2.4.1-1 [210 kB] Get:146 http://deb.debian.org/debian bullseye/main amd64 r-cran-dbplyr all 2.1.0-1 [802 kB] Get:147 http://deb.debian.org/debian bullseye/main amd64 r-cran-rappdirs amd64 0.3.3-1 [47.4 kB] Get:148 http://deb.debian.org/debian bullseye/main amd64 r-cran-curl amd64 4.3+dfsg-1+b1 [151 kB] Get:149 http://deb.debian.org/debian bullseye/main amd64 r-cran-jsonlite amd64 1.7.2+dfsg-1 [447 kB] Get:150 http://deb.debian.org/debian bullseye/main amd64 r-cran-mime amd64 0.9-1+b1 [35.5 kB] Get:151 http://deb.debian.org/debian bullseye/main amd64 r-cran-sys amd64 3.4-1 [42.9 kB] Get:152 http://deb.debian.org/debian bullseye/main amd64 r-cran-askpass amd64 1.1-2 [22.2 kB] Get:153 http://deb.debian.org/debian bullseye/main amd64 r-cran-openssl amd64 1.4.3+dfsg-2 [376 kB] Get:154 http://deb.debian.org/debian bullseye/main amd64 r-cran-httr all 1.4.2-1 [478 kB] Get:155 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocfilecache all 1.14.0+dfsg-1 [289 kB] Get:156 http://deb.debian.org/debian bullseye/main amd64 r-cran-formatr all 1.7-2 [151 kB] Get:157 http://deb.debian.org/debian bullseye/main amd64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get:158 http://deb.debian.org/debian bullseye/main amd64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get:159 http://deb.debian.org/debian bullseye/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get:160 http://deb.debian.org/debian bullseye/main amd64 r-cran-snow all 1:0.4.3-2 [109 kB] Get:161 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocparallel amd64 1.24.1-1 [1143 kB] Get:162 http://deb.debian.org/debian bullseye/main amd64 r-cran-xml amd64 3.99-0.5-1 [1722 kB] Get:163 http://deb.debian.org/debian bullseye/main amd64 r-cran-hms all 1.0.0-1 [102 kB] Get:164 http://deb.debian.org/debian bullseye/main amd64 r-cran-prettyunits all 1.1.1-2 [39.1 kB] Get:165 http://deb.debian.org/debian bullseye/main amd64 r-cran-progress all 1.2.2-2 [88.9 kB] Get:166 http://deb.debian.org/debian bullseye/main amd64 r-cran-stringi amd64 1.5.3-1 [729 kB] Get:167 http://deb.debian.org/debian bullseye/main amd64 r-cran-stringr all 1.4.0-2 [199 kB] Get:168 http://deb.debian.org/debian bullseye/main amd64 r-cran-xml2 amd64 1.3.2-1+b1 [270 kB] Get:169 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biomart all 2.46.2+dfsg-1 [414 kB] Get:170 http://deb.debian.org/debian bullseye/main amd64 r-bioc-zlibbioc all 1.36.0+dfsg-1 [8824 B] Get:171 http://deb.debian.org/debian bullseye/main amd64 r-bioc-xvector amd64 0.30.0-1 [620 kB] Get:172 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biostrings amd64 2.58.0-1 [14.2 MB] Get:173 http://deb.debian.org/debian bullseye/main amd64 r-cran-bitops amd64 1.0-6-5 [23.6 kB] Get:174 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcurl amd64 1.98-1.2-1+b1 [787 kB] Get:175 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomeinfodbdata all 1.2.4-1 [10.7 MB] Get:176 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomeinfodb all 1.26.2-2 [3905 kB] Get:177 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomicranges amd64 1.42.0+dfsg-1 [1856 kB] Get:178 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rhtslib amd64 1.22.0+dfsg-1 [1024 kB] Get:179 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rsamtools amd64 2.6.0-1 [3659 kB] Get:180 http://deb.debian.org/debian bullseye/main amd64 r-cran-matrixstats amd64 0.58.0-3 [664 kB] Get:181 http://deb.debian.org/debian bullseye/main amd64 r-bioc-matrixgenerics all 1.2.1-4 [288 kB] Get:182 http://deb.debian.org/debian bullseye/main amd64 r-cran-lattice amd64 0.20-41-1+b1 [1164 kB] Get:183 http://deb.debian.org/debian bullseye/main amd64 r-cran-matrix amd64 1.3-2-1 [3604 kB] Get:184 http://deb.debian.org/debian bullseye/main amd64 r-bioc-delayedarray amd64 0.16.1+dfsg-1 [1798 kB] Get:185 http://deb.debian.org/debian bullseye/main amd64 r-bioc-summarizedexperiment all 1.20.0+dfsg-1 [1955 kB] Get:186 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomicalignments amd64 1.26.0-1 [2196 kB] Get:187 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rtracklayer amd64 1.50.0-1 [7467 kB] Get:188 http://deb.debian.org/debian bullseye/main amd64 r-bioc-bsgenome all 1.58.0-1 [7206 kB] Get:189 http://deb.debian.org/debian bullseye/main amd64 r-bioc-dnacopy amd64 1.64.0-1 [420 kB] Get:190 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomicfeatures all 1.42.1+dfsg-1 [1834 kB] Get:191 http://deb.debian.org/debian bullseye/main amd64 r-bioc-variantannotation amd64 1.36.0-1 [3501 kB] Get:192 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcolorbrewer all 1.1-2-3 [54.4 kB] Get:193 http://deb.debian.org/debian bullseye/main amd64 r-cran-data.table amd64 1.13.6+dfsg-1 [1715 kB] Get:194 http://deb.debian.org/debian bullseye/main amd64 r-cran-gtable all 0.3.0+dfsg-2 [163 kB] Get:195 http://deb.debian.org/debian bullseye/main amd64 r-cran-brio amd64 1.1.1-1 [31.7 kB] Get:196 http://deb.debian.org/debian bullseye/main amd64 r-cran-ps amd64 1.5.0-1 [277 kB] Get:197 http://deb.debian.org/debian bullseye/main amd64 r-cran-processx amd64 3.4.5-1 [295 kB] Get:198 http://deb.debian.org/debian bullseye/main amd64 r-cran-callr all 3.5.1-1 [386 kB] Get:199 http://deb.debian.org/debian bullseye/main amd64 r-cran-rprojroot all 2.0.2-1 [114 kB] Get:200 http://deb.debian.org/debian bullseye/main amd64 r-cran-desc all 1.2.0-3 [301 kB] Get:201 http://deb.debian.org/debian bullseye/main amd64 r-cran-evaluate all 0.14-2 [81.1 kB] Get:202 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgbuild all 1.2.0-1 [146 kB] Get:203 http://deb.debian.org/debian bullseye/main amd64 r-cran-rstudioapi all 0.13-1 [262 kB] Get:204 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgload amd64 1.1.0-1 [168 kB] Get:205 http://deb.debian.org/debian bullseye/main amd64 r-cran-praise all 1.0.0-4 [20.1 kB] Get:206 http://deb.debian.org/debian bullseye/main amd64 r-cran-diffobj amd64 0.3.2-1 [1069 kB] Get:207 http://deb.debian.org/debian bullseye/main amd64 r-cran-rematch2 all 2.1.2-2 [46.3 kB] Get:208 http://deb.debian.org/debian bullseye/main amd64 r-cran-waldo all 0.2.3-2 [79.3 kB] Get:209 http://deb.debian.org/debian bullseye/main amd64 r-cran-testthat amd64 3.0.1-1 [1451 kB] Get:210 http://deb.debian.org/debian bullseye/main amd64 r-cran-isoband amd64 0.2.3-2 [2085 kB] Get:211 http://deb.debian.org/debian bullseye/main amd64 r-cran-mass amd64 7.3-53.1-1 [1115 kB] Get:212 http://deb.debian.org/debian bullseye/main amd64 r-cran-nlme amd64 3.1.152-1 [2241 kB] Get:213 http://deb.debian.org/debian bullseye/main amd64 r-cran-mgcv amd64 1.8-34-1 [2998 kB] Get:214 http://deb.debian.org/debian bullseye/main amd64 r-cran-farver amd64 2.0.3-1+b1 [1393 kB] Get:215 http://deb.debian.org/debian bullseye/main amd64 r-cran-labeling all 0.4.2-1 [62.7 kB] Get:216 http://deb.debian.org/debian bullseye/main amd64 r-cran-colorspace amd64 2.0-0+dfsg-1 [1684 kB] Get:217 http://deb.debian.org/debian bullseye/main amd64 r-cran-munsell all 0.5.0-2 [236 kB] Get:218 http://deb.debian.org/debian bullseye/main amd64 r-cran-viridislite all 0.3.0-4 [59.2 kB] Get:219 http://deb.debian.org/debian bullseye/main amd64 r-cran-scales all 1.1.1-1 [557 kB] Get:220 http://deb.debian.org/debian bullseye/main amd64 r-cran-ggplot2 all 3.3.3+dfsg-1 [3158 kB] Get:221 http://deb.debian.org/debian bullseye/main amd64 r-cran-gridextra all 2.3-3 [1024 kB] Get:222 http://deb.debian.org/debian bullseye/main amd64 r-cran-vgam amd64 1.1-5-1 [6977 kB] Get:223 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rhdf5lib amd64 1.12.1+dfsg-3+b1 [27.9 kB] Get:224 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rhdf5filters amd64 1.2.0+dfsg2-1 [22.1 kB] Get:225 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rhdf5 amd64 2.34.0+dfsg-1 [548 kB] Get:226 http://deb.debian.org/debian bullseye/main amd64 r-bioc-purecn all 1.20.0+dfsg-3 [5304 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 219 MB in 3s (64.8 MB/s) 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Setting up r-bioc-genomeinfodb (1.26.2-2) ... Setting up r-cran-httr (1.4.2-1) ... Setting up r-cran-scales (1.1.1-1) ... Setting up r-cran-memoise (2.0.0-1) ... Setting up r-bioc-xvector (0.30.0-1) ... Setting up r-cran-pkgbuild (1.2.0-1) ... Setting up r-cran-vctrs (0.3.6-1) ... Setting up r-cran-pillar (1.4.7-1) ... Setting up r-cran-pkgload (1.1.0-1) ... Setting up r-bioc-genomicranges (1.42.0+dfsg-1) ... Setting up r-bioc-biostrings (2.58.0-1) ... Setting up r-cran-tibble (3.0.6+dfsg-1) ... Setting up r-cran-tidyselect (1.1.0+dfsg-1) ... Setting up r-cran-hms (1.0.0-1) ... Setting up r-cran-blob (1.2.1-2) ... Setting up r-bioc-rsamtools (2.6.0-1) ... Setting up r-cran-dplyr (1.0.4-1) ... Setting up r-cran-dbplyr (2.1.0-1) ... Setting up r-cran-rsqlite (2.2.3-1) ... Setting up r-cran-progress (1.2.2-2) ... Setting up r-bioc-summarizedexperiment (1.20.0+dfsg-1) ... Setting up r-bioc-biocfilecache (1.14.0+dfsg-1) ... Setting up r-bioc-annotationdbi (1.52.0-1) ... Setting up r-cran-rematch2 (2.1.2-2) ... Setting up r-cran-waldo (0.2.3-2) ... Setting up r-bioc-biomart (2.46.2+dfsg-1) ... Setting up r-bioc-genomicalignments (1.26.0-1) ... Setting up r-bioc-rtracklayer (1.50.0-1) ... Setting up r-bioc-genomicfeatures (1.42.1+dfsg-1) ... Setting up r-cran-testthat (3.0.1-1) ... Setting up r-cran-isoband (0.2.3-2) ... Setting up r-bioc-bsgenome (1.58.0-1) ... Setting up r-bioc-variantannotation (1.36.0-1) ... Setting up r-cran-ggplot2 (3.3.3+dfsg-1) ... Setting up r-bioc-purecn (1.20.0+dfsg-3) ... Processing triggers for libc-bin (2.31-13+deb11u11) ... Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn'] 0m50.5s INFO: Running scripts post_install 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 0m50.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 0m52.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 0m52.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpypu09s1d to stable 0m52.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m52.6s INFO: Running scripts pre_distupgrade 0m52.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m52.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m52.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_exceptions'] 0m52.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_exceptions'] 0m52.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m52.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m52.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m52.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m52.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m52.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m52.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'update'] 0m56.6s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [151 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8787 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [6109 kB] Fetched 15.0 MB in 3s (5324 kB/s) Reading package lists... 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'update'] 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-yf', 'dist-upgrade'] 2m33.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: gcc-11-base libasan6 libgcc-10-dev libicu67 libldap-2.4-2 libstdc++-10-dev libtiff5 libtsan0 libwebp6 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libsemanage1 The following NEW packages will be installed: gcc-11-base gcc-12-base libasan8 libcap2 libcurl4-openssl-dev libffi8 libfile-find-rule-perl libgcc-12-dev libgdbm-compat4 libgdbm6 libicu72 libldap-2.5-0 liblerc4 libnumber-compare-perl libperl5.36 libsemanage2 libsepol2 libssl-dev libssl3 libstdc++-12-dev libtext-glob-perl libtiff6 libtsan2 libuv1 libwebp7 perl perl-modules-5.36 r-bioc-biocio r-bioc-keggrest r-cran-codetools r-cran-cpp11 r-cran-filelock r-cran-fs r-cran-mclust r-cran-png r-cran-restfulr r-cran-rjson r-cran-yaml rpcsvc-proto usrmerge util-linux-extra The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils ca-certificates coreutils dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils fontconfig fontconfig-config fonts-dejavu-core gpgv grep gzip hdf5-helpers hostname init-system-helpers libacl1 libaec-dev libaec0 libapt-pkg6.0 libasan6 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libblosc1 libboost1.74-dev libbrotli1 libbsd0 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcairo2 libcap-ng0 libcom-err2 libcrypt-dev libcrypt1 libcurl4 libdatrie1 libdb5.3 libdebconfclient0 libdeflate0 libexpat1 libext2fs2 libfontconfig1 libfreetype6 libfribidi0 libgcc-s1 libgcrypt20 libgfortran5 libglib2.0-0 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libharfbuzz0b libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhogweed6 libidn2-0 libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libnettle8 libnghttp2-14 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-8-0 libpcre3 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsmartcols1 libsnappy1v5 libss2 libssh2-1 libstdc++6 libsystemd0 libsz2 libtasn1-6 libtcl8.6 libthai-data libthai0 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtk8.6 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libx11-6 libx11-data libxcb-render0 libxcb-shm0 libxcb1 libxext6 libxft2 libxml2 libxrender1 libxt6 libxxhash0 libzstd1 linux-libc-dev littler login logsave lsb-base mawk mount ncurses-base ncurses-bin node-html5shiv openssl passwd perl-base r-base-core r-bioc-annotationdbi r-bioc-biobase r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-dnacopy r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-purecn r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-variantannotation r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bit r-cran-bitops r-cran-blob r-cran-brio r-cran-cachem r-cran-callr r-cran-cli r-cran-colorspace r-cran-crayon r-cran-curl r-cran-data.table r-cran-dbi r-cran-dbplyr r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-formatr r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-hms r-cran-httr r-cran-isoband r-cran-jsonlite r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-nlme r-cran-openssl r-cran-pillar r-cran-pkgbuild r-cran-pkgkitten r-cran-pkgload r-cran-processx r-cran-ps r-cran-purrr r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-rlang r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-scales r-cran-snow r-cran-stringi r-cran-stringr r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyselect r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml r-cran-xml2 readline-common sed sensible-utils sysvinit-utils tar tzdata ucf unzip util-linux x11-common zip zlib1g zlib1g-dev 283 upgraded, 41 newly installed, 1 to remove and 0 not upgraded. Need to get 281 MB of archives. After this operation, 180 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 base-files amd64 12.4+deb12u7 [70.8 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libcrypt-dev amd64 1:4.4.33-2 [118 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libc6-dev amd64 2.36-9+deb12u8 [1900 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libc-dev-bin amd64 2.36-9+deb12u8 [46.3 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libaudit-common all 1:3.0.9-1 [10.4 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libc6 amd64 2.36-9+deb12u8 [2754 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libc-bin amd64 2.36-9+deb12u8 [608 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 libcap-ng0 amd64 0.8.3-1+b3 [17.1 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libaudit1 amd64 1:3.0.9-1 [46.8 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 perl-base amd64 5.36.0-7+deb12u1 [1608 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 debconf all 1.5.82 [121 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libpam0g amd64 1.5.2-6+deb12u1 [92.0 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libcrypt1 amd64 1:4.4.33-2 [89.5 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 linux-libc-dev amd64 6.1.106-3 [2027 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 gcc-12-base amd64 12.2.0-14 [37.5 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libgcc-s1 amd64 12.2.0-14 [49.9 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libblkid1 amd64 2.38.1-5+deb12u1 [147 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libpcre2-8-0 amd64 10.42-1 [261 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libselinux1 amd64 3.4-1+b6 [73.7 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libmount1 amd64 2.38.1-5+deb12u1 [165 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libsmartcols1 amd64 2.38.1-5+deb12u1 [107 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 login amd64 1:4.13+dfsg1-1+b1 [616 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 util-linux-extra amd64 2.38.1-5+deb12u1 [110 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 util-linux amd64 2.38.1-5+deb12u1 [1176 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 liblzma5 amd64 5.4.1-0.2 [205 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libzstd1 amd64 1.5.4+dfsg2-5 [290 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 tar amd64 1.34+dfsg-1.2+deb12u1 [836 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 dpkg amd64 1.21.22 [1567 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 sysvinit-utils amd64 3.06-4 [31.0 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 lsb-base all 11.6 [4584 B] Get:32 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 debianutils amd64 5.7-0.5~deb12u1 [103 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 bash amd64 5.2.15-2+b7 [1490 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 bsdutils amd64 1:2.38.1-5+deb12u1 [94.3 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libgmp10 amd64 2:6.2.1+dfsg1-1.1 [563 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 coreutils amd64 9.1-1 [2897 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 dash amd64 0.5.12-2 [91.8 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 diffutils amd64 1:3.8-4 [352 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 findutils amd64 4.9.0-4 [636 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 grep amd64 3.8-5 [421 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 gzip amd64 1.12-1 [140 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 hostname amd64 3.23+nmu1 [10.5 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libtinfo6 amd64 6.4-4 [331 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 ncurses-bin amd64 6.4-4 [421 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 sed amd64 4.9-1 [329 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libgpg-error0 amd64 1.46-1 [76.9 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libgcrypt20 amd64 1.10.1-3 [696 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libstdc++6 amd64 12.2.0-14 [614 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libbz2-1.0 amd64 1.0.8-5+b1 [47.3 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 liblz4-1 amd64 1.9.4-1 [62.9 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libcap2 amd64 1:2.66-4 [27.0 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libsystemd0 amd64 252.30-1~deb12u2 [332 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libudev1 amd64 252.30-1~deb12u2 [109 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libxxhash0 amd64 0.8.1-1 [27.6 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 zlib1g amd64 1:1.2.13.dfsg-1 [86.7 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libapt-pkg6.0 amd64 2.6.1 [907 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libnettle8 amd64 3.8.1-2 [288 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libhogweed6 amd64 3.8.1-2 [328 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libunistring2 amd64 1.0-2 [437 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libidn2-0 amd64 2.3.3-1+b1 [124 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libffi8 amd64 3.4.4-1 [22.9 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libp11-kit0 amd64 0.24.1-2 [345 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libtasn1-6 amd64 4.19.0-2 [56.6 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 libgnutls30 amd64 3.7.9-2+deb12u3 [1405 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libsemanage-common all 3.4-1 [21.6 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libsepol2 amd64 3.4-2.1 [276 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libsemanage2 amd64 3.4-1+b5 [89.9 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 passwd amd64 1:4.13+dfsg1-1+b1 [972 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libpam-modules-bin amd64 1.5.2-6+deb12u1 [75.6 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 libpam-modules amd64 1.5.2-6+deb12u1 [291 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 adduser all 3.134 [183 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 gpgv amd64 2.2.40-1.1 [648 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 debian-archive-keyring all 2023.3+deb12u1 [161 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libseccomp2 amd64 2.5.4-1+deb12u1 [46.8 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 apt amd64 2.6.1 [1373 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libdebconfclient0 amd64 0.270 [9900 B] Get:79 http://deb.debian.org/debian bookworm/main amd64 base-passwd amd64 3.6.1 [60.0 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-7+deb12u1 [2815 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libdb5.3 amd64 5.3.28+dfsg2-1 [697 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-7+deb12u1 [4218 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-7+deb12u1 [239 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libnumber-compare-perl all 0.03-3 [6332 B] Get:87 http://deb.debian.org/debian bookworm/main amd64 libtext-glob-perl all 0.11-3 [7676 B] Get:88 http://deb.debian.org/debian bookworm/main amd64 libfile-find-rule-perl all 0.34-3 [26.6 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 usrmerge all 37~deb12u1 [13.3 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 init-system-helpers all 1.65.2 [49.8 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 ncurses-base all 6.4-4 [261 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 logsave amd64 1.47.0-2 [19.6 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libext2fs2 amd64 1.47.0-2 [205 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 e2fsprogs amd64 1.47.0-2 [571 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 mount amd64 2.38.1-5+deb12u1 [134 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libpam-runtime all 1.5.2-6+deb12u1 [161 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libacl1 amd64 2.3.1-3 [31.5 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libattr1 amd64 1:2.5.1-4 [22.2 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libmd0 amd64 1.0.4-2 [29.5 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libpcre3 amd64 2:8.39-15 [341 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 libuuid1 amd64 2.38.1-5+deb12u1 [28.6 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 mawk amd64 1.3.4.20200120-3.1 [119 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 tzdata all 2024a-0+deb12u1 [297 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.14-1~deb12u1 [2024 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.14-1~deb12u1 [1423 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5+deb12u3 [398 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 gcc-11-base amd64 11.3.0-12 [38.4 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 hdf5-helpers amd64 1.10.8+repack1-1 [27.9 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 libaec-dev amd64 1.0.6-1+b1 [19.9 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 libaec0 amd64 1.0.6-1+b1 [21.1 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 libsz2 amd64 1.0.6-1+b1 [7804 B] Get:123 http://deb.debian.org/debian bookworm/main amd64 libasan6 amd64 11.3.0-12 [2050 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 libasan8 amd64 12.2.0-14 [2195 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 libatomic1 amd64 12.2.0-14 [9328 B] Get:126 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 libsnappy1v5 amd64 1.1.9-3 [26.0 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 libblosc1 amd64 1.21.3+ds-1 [49.3 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libitm1 amd64 12.2.0-14 [26.1 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 liblsan0 amd64 12.2.0-14 [969 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libtsan2 amd64 12.2.0-14 [2196 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libubsan1 amd64 12.2.0-14 [883 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libgcc-12-dev amd64 12.2.0-14 [2437 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libstdc++-12-dev amd64 12.2.0-14 [2046 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21 [9508 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:140 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get:148 http://deb.debian.org/debian bookworm/main amd64 libcom-err2 amd64 1.47.0-2 [19.8 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u2 [135 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u2 [332 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u2 [78.7 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u2 [32.6 kB] Get:153 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:154 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-10+deb12u7 [390 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 libcurl4-openssl-dev amd64 7.88.1-10+deb12u7 [491 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:163 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2+deb12u3 [1400 kB] Get:167 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 libhdf5-dev amd64 1.10.8+repack1-1 [2615 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 libhdf5-fortran-102 amd64 1.10.8+repack1-1 [93.3 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 libhdf5-hl-100 amd64 1.10.8+repack1-1 [67.8 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 libhdf5-hl-fortran-100 amd64 1.10.8+repack1-1 [44.5 kB] Get:172 http://deb.debian.org/debian bookworm/main amd64 libhdf5-cpp-103-1 amd64 1.10.8+repack1-1 [128 kB] Get:173 http://deb.debian.org/debian bookworm/main amd64 libhdf5-hl-cpp-100 amd64 1.10.8+repack1-1 [25.5 kB] Get:174 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-2 [290 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 libjpeg-dev amd64 1:2.1.5-2 [71.8 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 libssl-dev amd64 3.0.14-1~deb12u1 [2438 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 libhdf5-103-1 amd64 1.10.8+repack1-1 [1237 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:181 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get:185 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get:186 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get:187 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:188 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:189 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get:190 http://deb.debian.org/debian bookworm/main amd64 libpaper-utils amd64 1.1.29 [8868 B] Get:191 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:192 http://deb.debian.org/debian bookworm/main amd64 libss2 amd64 1.47.0-2 [24.5 kB] Get:193 http://deb.debian.org/debian bookworm/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [1035 kB] Get:194 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:195 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get:196 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:197 http://deb.debian.org/debian bookworm/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Get:198 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:199 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get:200 http://deb.debian.org/debian bookworm/main amd64 libtk8.6 amd64 8.6.13-2 [781 kB] Get:201 http://deb.debian.org/debian bookworm/main amd64 libtsan0 amd64 11.3.0-12 [2016 kB] Get:202 http://deb.debian.org/debian bookworm/main amd64 libuv1 amd64 1.44.2-1+deb12u1 [136 kB] Get:203 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get:204 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1.1 [186 kB] Get:205 http://deb.debian.org/debian bookworm/main amd64 zip amd64 3.0-13 [230 kB] Get:206 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-28 [166 kB] Get:207 http://deb.debian.org/debian bookworm/main amd64 r-base-core amd64 4.2.2.20221110-2 [26.0 MB] Get:208 http://deb.debian.org/debian bookworm/main amd64 r-cran-littler amd64 0.3.17-1 [96.3 kB] Get:209 http://deb.debian.org/debian bookworm/main amd64 littler all 0.3.17-1 [14.4 kB] Get:210 http://deb.debian.org/debian bookworm/main amd64 node-html5shiv all 3.7.3+dfsg-5 [13.2 kB] Get:211 http://deb.debian.org/debian bookworm/main amd64 r-bioc-zlibbioc all 1.44.0+dfsg-1 [9200 B] Get:212 http://deb.debian.org/debian bookworm/main amd64 r-bioc-s4vectors amd64 0.36.1-1 [2026 kB] Get:213 http://deb.debian.org/debian bookworm/main amd64 r-bioc-iranges amd64 2.32.0-1 [2222 kB] Get:214 http://deb.debian.org/debian bookworm/main amd64 r-bioc-xvector amd64 0.38.0-1 [618 kB] Get:215 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrixstats amd64 0.63.0-1 [470 kB] Get:216 http://deb.debian.org/debian bookworm/main amd64 r-bioc-matrixgenerics all 1.10.0-1 [302 kB] Get:217 http://deb.debian.org/debian bookworm/main amd64 r-cran-bitops amd64 1.0-7-1 [30.2 kB] Get:218 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcurl amd64 1.98-1.10+dfsg-1 [783 kB] Get:219 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodbdata all 1.2.9-1 [11.7 MB] Get:220 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodb all 1.34.9-1 [3938 kB] Get:221 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicranges amd64 1.50.2+dfsg-1 [1796 kB] Get:222 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biobase amd64 2.58.0-2 [2112 kB] Get:223 http://deb.debian.org/debian bookworm/main amd64 r-cran-lattice amd64 0.20-45-3 [1177 kB] Get:224 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrix amd64 1.5-3-1 [3822 kB] Get:225 http://deb.debian.org/debian bookworm/main amd64 r-bioc-delayedarray amd64 0.24.0+dfsg-1 [1937 kB] Get:226 http://deb.debian.org/debian bookworm/main amd64 r-bioc-summarizedexperiment all 1.28.0+dfsg-1 [2018 kB] Get:227 http://deb.debian.org/debian bookworm/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get:228 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biostrings amd64 2.66.0-1 [13.8 MB] Get:229 http://deb.debian.org/debian bookworm/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get:230 http://deb.debian.org/debian bookworm/main amd64 r-cran-codetools all 0.2-19-1 [90.9 kB] Get:231 http://deb.debian.org/debian bookworm/main amd64 r-cran-bh all 1.74.0-2 [5524 B] Get:232 http://deb.debian.org/debian bookworm/main amd64 r-cran-cpp11 all 0.4.3-1 [223 kB] Get:233 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocparallel amd64 1.32.5-1 [1337 kB] Get:234 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhtslib amd64 2.0.0+dfsg-1 [1287 kB] Get:235 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rsamtools amd64 2.14.0-1 [3755 kB] Get:236 http://deb.debian.org/debian bookworm/main amd64 r-cran-dbi all 1.1.3-1 [687 kB] Get:237 http://deb.debian.org/debian bookworm/main amd64 r-cran-xml amd64 3.99-0.13-1 [1717 kB] Get:238 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicalignments amd64 1.34.0-1 [2112 kB] Get:239 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocio all 1.8.0+dfsg-1 [201 kB] Get:240 http://deb.debian.org/debian bookworm/main amd64 r-cran-rjson amd64 0.2.21-1 [139 kB] Get:241 http://deb.debian.org/debian bookworm/main amd64 r-cran-yaml amd64 2.3.7-1 [104 kB] Get:242 http://deb.debian.org/debian bookworm/main amd64 r-cran-restfulr amd64 0.0.15-1 [382 kB] Get:243 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rtracklayer amd64 1.58.0-1 [5104 kB] Get:244 http://deb.debian.org/debian bookworm/main amd64 r-bioc-bsgenome all 1.66.3-1 [6997 kB] Get:245 http://deb.debian.org/debian bookworm/main amd64 r-cran-rlang amd64 1.0.6-1 [1618 kB] Get:246 http://deb.debian.org/debian bookworm/main amd64 r-cran-cli amd64 3.6.0-1 [1287 kB] Get:247 http://deb.debian.org/debian bookworm/main amd64 r-cran-glue amd64 1.6.2-1 [152 kB] Get:248 http://deb.debian.org/debian bookworm/main amd64 r-cran-lifecycle all 1.0.3+dfsg-1 [109 kB] Get:249 http://deb.debian.org/debian bookworm/main amd64 r-cran-vctrs amd64 0.5.2-1 [1371 kB] Get:250 http://deb.debian.org/debian bookworm/main amd64 r-cran-blob all 1.2.3-1 [49.5 kB] Get:251 http://deb.debian.org/debian bookworm/main amd64 r-cran-fastmap amd64 1.1.1-1 [68.9 kB] Get:252 http://deb.debian.org/debian bookworm/main amd64 r-cran-cachem amd64 1.0.7-1 [71.6 kB] Get:253 http://deb.debian.org/debian bookworm/main amd64 r-cran-memoise all 2.0.1-1 [53.8 kB] Get:254 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgkitten all 0.2.2-2 [27.0 kB] Get:255 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpp amd64 1.0.10-1 [2059 kB] Get:256 http://deb.debian.org/debian bookworm/main amd64 r-cran-rsqlite amd64 2.2.20-1 [1123 kB] Get:257 http://deb.debian.org/debian bookworm/main amd64 r-cran-magrittr amd64 2.0.3-1 [201 kB] Get:258 http://deb.debian.org/debian bookworm/main amd64 r-cran-stringi amd64 1.7.12-1 [858 kB] Get:259 http://deb.debian.org/debian bookworm/main amd64 r-cran-stringr all 1.5.0-1 [295 kB] Get:260 http://deb.debian.org/debian bookworm/main amd64 r-cran-curl amd64 5.0.0+dfsg-1 [172 kB] Get:261 http://deb.debian.org/debian bookworm/main amd64 r-cran-jsonlite amd64 1.8.4+dfsg-1 [442 kB] Get:262 http://deb.debian.org/debian bookworm/main amd64 r-cran-mime amd64 0.12-1+b1 [36.0 kB] Get:263 http://deb.debian.org/debian bookworm/main amd64 r-cran-openssl amd64 2.0.5+dfsg-1 [391 kB] Get:264 http://deb.debian.org/debian bookworm/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get:265 http://deb.debian.org/debian bookworm/main amd64 r-cran-httr all 1.4.5+dfsg-1 [465 kB] Get:266 http://deb.debian.org/debian bookworm/main amd64 r-cran-digest amd64 0.6.31-1 [184 kB] Get:267 http://deb.debian.org/debian bookworm/main amd64 r-cran-generics all 0.1.3-1 [81.4 kB] Get:268 http://deb.debian.org/debian bookworm/main amd64 r-cran-fansi amd64 1.0.4-1 [619 kB] Get:269 http://deb.debian.org/debian bookworm/main amd64 r-cran-utf8 amd64 1.2.3-1 [133 kB] Get:270 http://deb.debian.org/debian bookworm/main amd64 r-cran-pillar all 1.8.1+dfsg-1 [463 kB] Get:271 http://deb.debian.org/debian bookworm/main amd64 r-cran-tibble amd64 3.1.8+dfsg-1 [513 kB] Get:272 http://deb.debian.org/debian bookworm/main amd64 r-cran-withr all 2.5.0-1 [236 kB] Get:273 http://deb.debian.org/debian bookworm/main amd64 r-cran-tidyselect amd64 1.2.0+dfsg-1 [219 kB] Get:274 http://deb.debian.org/debian bookworm/main amd64 r-cran-dplyr amd64 1.0.10-1 [1227 kB] Get:275 http://deb.debian.org/debian bookworm/main amd64 r-cran-purrr amd64 1.0.1-1 [507 kB] Get:276 http://deb.debian.org/debian bookworm/main amd64 r-cran-dbplyr all 2.3.0+dfsg-1 [1055 kB] Get:277 http://deb.debian.org/debian bookworm/main amd64 r-cran-filelock amd64 1.0.2-2 [24.6 kB] Get:278 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocfilecache all 2.6.1+dfsg-1 [296 kB] Get:279 http://deb.debian.org/debian bookworm/main amd64 r-cran-xml2 amd64 1.3.3-1+b1 [280 kB] Get:280 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biomart all 2.54.0+dfsg-1 [442 kB] Get:281 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicfeatures all 1.50.4+dfsg-1 [1676 kB] Get:282 http://deb.debian.org/debian bookworm/main amd64 r-bioc-variantannotation amd64 1.44.1-1 [3642 kB] Get:283 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhdf5lib amd64 1.20.0+dfsg-1 [102 kB] Get:284 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhdf5filters amd64 1.10.0+dfsg-1 [120 kB] Get:285 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhdf5 amd64 2.42.0+dfsg-1 [792 kB] Get:286 http://deb.debian.org/debian bookworm/main amd64 r-bioc-dnacopy amd64 1.72.3-1 [377 kB] Get:287 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcolorbrewer all 1.1-3-1 [54.7 kB] Get:288 http://deb.debian.org/debian bookworm/main amd64 r-cran-data.table amd64 1.14.8+dfsg-1 [1683 kB] Get:289 http://deb.debian.org/debian bookworm/main amd64 r-cran-gtable all 0.3.1+dfsg-1 [165 kB] Get:290 http://deb.debian.org/debian bookworm/main amd64 r-cran-isoband amd64 0.2.7-1 [1614 kB] Get:291 http://deb.debian.org/debian bookworm/main amd64 r-cran-mass amd64 7.3-58.2-1 [1121 kB] Get:292 http://deb.debian.org/debian bookworm/main amd64 r-cran-nlme amd64 3.1.162-1 [2260 kB] Get:293 http://deb.debian.org/debian bookworm/main amd64 r-cran-mgcv amd64 1.8-41-1 [3171 kB] Get:294 http://deb.debian.org/debian bookworm/main amd64 r-cran-farver amd64 2.1.1-1 [1404 kB] Get:295 http://deb.debian.org/debian bookworm/main amd64 r-cran-viridislite all 0.4.1-1 [1299 kB] Get:296 http://deb.debian.org/debian bookworm/main amd64 r-cran-scales all 1.2.1-1 [614 kB] Get:297 http://deb.debian.org/debian bookworm/main amd64 r-cran-ggplot2 all 3.4.1+dfsg-1 [3333 kB] Get:298 http://deb.debian.org/debian bookworm/main amd64 r-cran-vgam amd64 1.1-7-1 [7230 kB] Get:299 http://deb.debian.org/debian bookworm/main amd64 r-cran-mclust amd64 6.0.0-1 [3945 kB] Get:300 http://deb.debian.org/debian bookworm/main amd64 r-bioc-purecn all 2.4.0+dfsg-1 [6025 kB] Get:301 http://deb.debian.org/debian bookworm/main amd64 r-bioc-annotationdbi all 1.60.0-1 [4696 kB] Get:302 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocgenerics all 0.44.0-2 [600 kB] Get:303 http://deb.debian.org/debian bookworm/main amd64 r-cran-png amd64 0.1-8-1 [41.1 kB] Get:304 http://deb.debian.org/debian bookworm/main amd64 r-bioc-keggrest all 1.38.0+dfsg-1 [179 kB] Get:305 http://deb.debian.org/debian bookworm/main amd64 r-cran-bit amd64 4.0.5-1 [1070 kB] Get:306 http://deb.debian.org/debian bookworm/main amd64 r-cran-brio amd64 1.1.3-1+b1 [35.5 kB] Get:307 http://deb.debian.org/debian bookworm/main amd64 r-cran-ps amd64 1.7.2-1 [308 kB] Get:308 http://deb.debian.org/debian bookworm/main amd64 r-cran-processx amd64 3.8.0-1 [339 kB] Get:309 http://deb.debian.org/debian bookworm/main amd64 r-cran-callr all 3.7.3-2 [426 kB] Get:310 http://deb.debian.org/debian bookworm/main amd64 r-cran-colorspace amd64 2.1-0+dfsg-1 [1692 kB] Get:311 http://deb.debian.org/debian bookworm/main amd64 r-cran-rprojroot all 2.0.3-1 [119 kB] Get:312 http://deb.debian.org/debian bookworm/main amd64 r-cran-desc all 1.4.2-1 [348 kB] Get:313 http://deb.debian.org/debian bookworm/main amd64 r-cran-diffobj amd64 0.3.5-1+b1 [1122 kB] Get:314 http://deb.debian.org/debian bookworm/main amd64 r-cran-ellipsis amd64 0.3.2-2 [35.1 kB] Get:315 http://deb.debian.org/debian bookworm/main amd64 r-cran-evaluate all 0.20-1 [85.9 kB] Get:316 http://deb.debian.org/debian bookworm/main amd64 r-cran-formatr all 1.14-1 [152 kB] Get:317 http://deb.debian.org/debian bookworm/main amd64 r-cran-fs amd64 1.6.1+dfsg-1 [226 kB] Get:318 http://deb.debian.org/debian bookworm/main amd64 r-cran-hms all 1.1.2-1 [104 kB] Get:319 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgbuild all 1.4.0-1 [187 kB] Get:320 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgload all 1.3.2-1 [206 kB] Get:321 http://deb.debian.org/debian bookworm/main amd64 r-cran-rstudioapi all 0.14-1 [281 kB] Get:322 http://deb.debian.org/debian bookworm/main amd64 r-cran-sys amd64 3.4.1-1 [42.7 kB] Get:323 http://deb.debian.org/debian bookworm/main amd64 r-cran-waldo all 0.4.0-1 [116 kB] Get:324 http://deb.debian.org/debian bookworm/main amd64 r-cran-testthat amd64 3.1.6-1 [1545 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 281 MB in 12s (23.5 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 ... 38724 files and directories currently installed.) Preparing to unpack .../base-files_12.4+deb12u7_amd64.deb ... Unpacking base-files (12.4+deb12u7) over (11.1+deb11u11) ... Setting up base-files (12.4+deb12u7) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... (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 ... 38724 files and directories currently installed.) Preparing to unpack .../libcrypt-dev_1%3a4.4.33-2_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.33-2) over (1:4.4.18-4) ... Preparing to unpack .../libc6-dev_2.36-9+deb12u8_amd64.deb ... Unpacking libc6-dev:amd64 (2.36-9+deb12u8) over (2.31-13+deb11u11) ... Replacing files in old package libc6:amd64 (2.31-13+deb11u11) ... Preparing to unpack .../libc-dev-bin_2.36-9+deb12u8_amd64.deb ... Unpacking libc-dev-bin (2.36-9+deb12u8) over (2.31-13+deb11u11) ... Selecting previously unselected package rpcsvc-proto. Preparing to unpack .../rpcsvc-proto_1.4.3-1_amd64.deb ... Unpacking rpcsvc-proto (1.4.3-1) ... Preparing to unpack .../libaudit-common_1%3a3.0.9-1_all.deb ... Unpacking libaudit-common (1:3.0.9-1) over (1:3.0-2) ... Setting up libaudit-common (1:3.0.9-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38734 files and directories currently installed.) Preparing to unpack .../libc6_2.36-9+deb12u8_amd64.deb ... Unpacking libc6:amd64 (2.36-9+deb12u8) over (2.31-13+deb11u11) ... Setting up libc6:amd64 (2.36-9+deb12u8) ... (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 ... 38719 files and directories currently installed.) Preparing to unpack .../libc-bin_2.36-9+deb12u8_amd64.deb ... Unpacking libc-bin (2.36-9+deb12u8) over (2.31-13+deb11u11) ... Setting up libc-bin (2.36-9+deb12u8) ... (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 ... 38719 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.3-1+b3_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.3-1+b3) over (0.7.9-2.2+b1) ... Setting up libcap-ng0:amd64 (0.8.3-1+b3) ... (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 ... 38721 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a3.0.9-1_amd64.deb ... Unpacking libaudit1:amd64 (1:3.0.9-1) over (1:3.0-2) ... Setting up libaudit1:amd64 (1:3.0.9-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38721 files and directories currently installed.) Preparing to unpack .../perl-base_5.36.0-7+deb12u1_amd64.deb ... Unpacking perl-base (5.36.0-7+deb12u1) over (5.32.1-4+deb11u3) ... Setting up perl-base (5.36.0-7+deb12u1) ... (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 ... 38724 files and directories currently installed.) Preparing to unpack .../debconf_1.5.82_all.deb ... Unpacking debconf (1.5.82) over (1.5.77) ... Setting up debconf (1.5.82) ... (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 ... 38723 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.2-6+deb12u1_amd64.deb ... Unpacking libpam0g:amd64 (1.5.2-6+deb12u1) over (1.4.0-9+deb11u1) ... Setting up libpam0g:amd64 (1.5.2-6+deb12u1) ... (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 ... 38723 files and directories currently installed.) Preparing to unpack .../libcrypt1_1%3a4.4.33-2_amd64.deb ... Unpacking libcrypt1:amd64 (1:4.4.33-2) over (1:4.4.18-4) ... Setting up libcrypt1:amd64 (1:4.4.33-2) ... (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 ... 38723 files and directories currently installed.) Preparing to unpack .../linux-libc-dev_6.1.106-3_amd64.deb ... Unpacking linux-libc-dev:amd64 (6.1.106-3) over (5.10.223-1) ... Selecting previously unselected package gcc-12-base:amd64. Preparing to unpack .../gcc-12-base_12.2.0-14_amd64.deb ... Unpacking gcc-12-base:amd64 (12.2.0-14) ... Setting up gcc-12-base:amd64 (12.2.0-14) ... (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 ... 38769 files and directories currently installed.) Preparing to unpack .../libgcc-s1_12.2.0-14_amd64.deb ... Unpacking libgcc-s1:amd64 (12.2.0-14) over (10.2.1-6) ... Setting up libgcc-s1:amd64 (12.2.0-14) ... (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 ... 38769 files and directories currently installed.) Preparing to unpack .../libblkid1_2.38.1-5+deb12u1_amd64.deb ... Unpacking libblkid1:amd64 (2.38.1-5+deb12u1) over (2.36.1-8+deb11u2) ... Setting up libblkid1:amd64 (2.38.1-5+deb12u1) ... (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 ... 38770 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.42-1_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.42-1) over (10.36-2+deb11u1) ... Setting up libpcre2-8-0:amd64 (10.42-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38770 files and directories currently installed.) Preparing to unpack .../libselinux1_3.4-1+b6_amd64.deb ... Unpacking libselinux1:amd64 (3.4-1+b6) over (3.1-3) ... Setting up libselinux1:amd64 (3.4-1+b6) ... (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 ... 38771 files and directories currently installed.) Preparing to unpack .../libmount1_2.38.1-5+deb12u1_amd64.deb ... Unpacking libmount1:amd64 (2.38.1-5+deb12u1) over (2.36.1-8+deb11u2) ... Setting up libmount1:amd64 (2.38.1-5+deb12u1) ... (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 ... 38772 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.38.1-5+deb12u1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.38.1-5+deb12u1) over (2.36.1-8+deb11u2) ... Setting up libsmartcols1:amd64 (2.38.1-5+deb12u1) ... (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 ... 38773 files and directories currently installed.) Preparing to unpack .../login_1%3a4.13+dfsg1-1+b1_amd64.deb ... Unpacking login (1:4.13+dfsg1-1+b1) over (1:4.8.1-1) ... Setting up login (1:4.13+dfsg1-1+b1) ... Installing new version of config file /etc/login.defs ... (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 ... 38787 files and directories currently installed.) Preparing to unpack .../util-linux_2.38.1-5+deb12u1_amd64.deb ... Unpacking util-linux (2.38.1-5+deb12u1) over (2.36.1-8+deb11u2) ... dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/usr/lib/udev': Directory not empty Selecting previously unselected package util-linux-extra. Preparing to unpack .../util-linux-extra_2.38.1-5+deb12u1_amd64.deb ... Unpacking util-linux-extra (2.38.1-5+deb12u1) ... Setting up util-linux-extra (2.38.1-5+deb12u1) ... (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 ... 38797 files and directories currently installed.) Preparing to unpack .../liblzma5_5.4.1-0.2_amd64.deb ... Unpacking liblzma5:amd64 (5.4.1-0.2) over (5.2.5-2.1~deb11u1) ... Setting up liblzma5:amd64 (5.4.1-0.2) ... (Reading database ... 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(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 ... 38819 files and directories currently installed.) Preparing to unpack .../libxxhash0_0.8.1-1_amd64.deb ... Unpacking libxxhash0:amd64 (0.8.1-1) over (0.8.0-2) ... Setting up libxxhash0:amd64 (0.8.1-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38819 files and directories currently installed.) Preparing to unpack .../zlib1g-dev_1%3a1.2.13.dfsg-1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.13.dfsg-1) over (1:1.2.11.dfsg-2+deb11u2) ... Preparing to unpack .../zlib1g_1%3a1.2.13.dfsg-1_amd64.deb ... Unpacking zlib1g:amd64 (1:1.2.13.dfsg-1) over (1:1.2.11.dfsg-2+deb11u2) ... Setting up zlib1g:amd64 (1:1.2.13.dfsg-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38822 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.6.1_amd64.deb ... Unpacking libapt-pkg6.0:amd64 (2.6.1) over (2.2.4) ... Setting up libapt-pkg6.0:amd64 (2.6.1) ... (Reading database ... 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(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 ... 38822 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.3-1+b1_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.3-1+b1) over (2.3.0-5) ... Setting up libidn2-0:amd64 (2.3.3-1+b1) ... Selecting previously unselected package libffi8:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38824 files and directories currently installed.) Preparing to unpack .../libffi8_3.4.4-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.4-1) ... Setting up libffi8:amd64 (3.4.4-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38829 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.24.1-2_amd64.deb ... Unpacking libp11-kit0:amd64 (0.24.1-2) over (0.23.22-1) ... Setting up libp11-kit0:amd64 (0.24.1-2) ... (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 ... 38829 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-2) over (4.16.0-2+deb11u1) ... Setting up libtasn1-6:amd64 (4.19.0-2) ... (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 ... 38829 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.9-2+deb12u3_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.9-2+deb12u3) over (3.7.1-5+deb11u5) ... Setting up libgnutls30:amd64 (3.7.9-2+deb12u3) ... (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 ... 38831 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.4-1_all.deb ... Unpacking libsemanage-common (3.4-1) over (3.1-1) ... Setting up libsemanage-common (3.4-1) ... Installing new version of config file /etc/selinux/semanage.conf ... Selecting previously unselected package libsepol2:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38831 files and directories currently installed.) Preparing to unpack .../libsepol2_3.4-2.1_amd64.deb ... Unpacking libsepol2:amd64 (3.4-2.1) ... Setting up libsepol2:amd64 (3.4-2.1) ... Selecting previously unselected package libsemanage2:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38835 files and directories currently installed.) Preparing to unpack .../libsemanage2_3.4-1+b5_amd64.deb ... Unpacking libsemanage2:amd64 (3.4-1+b5) ... Setting up libsemanage2:amd64 (3.4-1+b5) ... (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 ... 38840 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.13+dfsg1-1+b1_amd64.deb ... Unpacking passwd (1:4.13+dfsg1-1+b1) over (1:4.8.1-1) ... Setting up passwd (1:4.13+dfsg1-1+b1) ... Installing new version of config file /etc/default/useradd ... (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 ... 38875 files and directories currently installed.) Removing libsemanage1:amd64 (3.1-1+b2) ... (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 ... 38870 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.2-6+deb12u1_amd64.deb ... Unpacking libpam-modules-bin (1.5.2-6+deb12u1) over (1.4.0-9+deb11u1) ... Replacing files in old package libpam-modules:amd64 (1.4.0-9+deb11u1) ... Setting up libpam-modules-bin (1.5.2-6+deb12u1) ... (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 ... 38877 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.2-6+deb12u1_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.2-6+deb12u1) over (1.4.0-9+deb11u1) ... Setting up libpam-modules:amd64 (1.5.2-6+deb12u1) ... Installing new version of config file /etc/security/limits.conf ... Installing new version of config file /etc/security/sepermit.conf ... (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 ... 38878 files and directories currently installed.) Preparing to unpack .../archives/adduser_3.134_all.deb ... moving unchanged adduser.conf to adduser.conf.update-old. New dpkg-conffile will come from the package. Unpacking adduser (3.134) over (3.118+deb11u1) ... Setting up adduser (3.134) ... Installing new version of config file /etc/deluser.conf ... (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 ... 38846 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.40-1.1_amd64.deb ... Unpacking gpgv (2.2.40-1.1) over (2.2.27-2+deb11u2) ... Setting up gpgv (2.2.40-1.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38846 files and directories currently installed.) Preparing to unpack .../debian-archive-keyring_2023.3+deb12u1_all.deb ... Unpacking debian-archive-keyring (2023.3+deb12u1) over (2021.1.1+deb11u1) ... Setting up debian-archive-keyring (2023.3+deb12u1) ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-buster-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-buster-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-buster-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bullseye-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bullseye-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bullseye-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bookworm-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bookworm-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bookworm-automatic.gpg ... (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 ... 38846 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.4-1+deb12u1_amd64.deb ... Unpacking libseccomp2:amd64 (2.5.4-1+deb12u1) over (2.5.1-1+deb11u1) ... Setting up libseccomp2:amd64 (2.5.4-1+deb12u1) ... (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 ... 38846 files and directories currently installed.) Preparing to unpack .../archives/apt_2.6.1_amd64.deb ... Unpacking apt (2.6.1) over (2.2.4) ... Setting up apt (2.6.1) ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt-compat ... Removing obsolete conffile /etc/kernel/postinst.d/apt-auto-removal ... (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 ... 38843 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.270_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.270) over (0.260) ... Setting up libdebconfclient0:amd64 (0.270) ... (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 ... 38843 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.1_amd64.deb ... Unpacking base-passwd (3.6.1) over (3.5.51) ... Setting up base-passwd (3.6.1) ... Selecting previously unselected package perl-modules-5.36. (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 ... 38843 files and directories currently installed.) Preparing to unpack .../perl-modules-5.36_5.36.0-7+deb12u1_all.deb ... Unpacking perl-modules-5.36 (5.36.0-7+deb12u1) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. Preparing to unpack .../libgdbm-compat4_1.23-3_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.23-3) ... Preparing to unpack .../libdb5.3_5.3.28+dfsg2-1_amd64.deb ... Unpacking libdb5.3:amd64 (5.3.28+dfsg2-1) over (5.3.28+dfsg1-0.8) ... Setting up libdb5.3:amd64 (5.3.28+dfsg2-1) ... Selecting previously unselected package libperl5.36:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40265 files and directories currently installed.) Preparing to unpack .../libperl5.36_5.36.0-7+deb12u1_amd64.deb ... Unpacking libperl5.36:amd64 (5.36.0-7+deb12u1) ... Selecting previously unselected package perl. Preparing to unpack .../perl_5.36.0-7+deb12u1_amd64.deb ... Unpacking perl (5.36.0-7+deb12u1) ... Selecting previously unselected package libnumber-compare-perl. Preparing to unpack .../libnumber-compare-perl_0.03-3_all.deb ... Unpacking libnumber-compare-perl (0.03-3) ... Setting up libnumber-compare-perl (0.03-3) ... Selecting previously unselected package libtext-glob-perl. (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 ... 40854 files and directories currently installed.) Preparing to unpack .../libtext-glob-perl_0.11-3_all.deb ... Unpacking libtext-glob-perl (0.11-3) ... Setting up libtext-glob-perl (0.11-3) ... Selecting previously unselected package libfile-find-rule-perl. (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 ... 40861 files and directories currently installed.) Preparing to unpack .../libfile-find-rule-perl_0.34-3_all.deb ... Unpacking libfile-find-rule-perl (0.34-3) ... Setting up perl-modules-5.36 (5.36.0-7+deb12u1) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u1) ... Setting up perl (5.36.0-7+deb12u1) ... Setting up libfile-find-rule-perl (0.34-3) ... Selecting previously unselected package usrmerge. (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 ... 40876 files and directories currently installed.) Preparing to unpack .../usrmerge_37~deb12u1_all.deb ... Unpacking usrmerge (37~deb12u1) ... Setting up usrmerge (37~deb12u1) ... (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 ... 40883 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.65.2_all.deb ... Unpacking init-system-helpers (1.65.2) over (1.60) ... Setting up init-system-helpers (1.65.2) ... (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 ... 40883 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.4-4_all.deb ... Unpacking ncurses-base (6.4-4) over (6.2+20201114-2+deb11u2) ... Setting up ncurses-base (6.4-4) ... (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 ... 40885 files and directories currently installed.) Preparing to unpack .../logsave_1.47.0-2_amd64.deb ... Unpacking logsave (1.47.0-2) over (1.46.2-2) ... Preparing to unpack .../libext2fs2_1.47.0-2_amd64.deb ... Unpacking libext2fs2:amd64 (1.47.0-2) over (1.46.2-2) ... Setting up libext2fs2:amd64 (1.47.0-2) ... (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 ... 40885 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.47.0-2_amd64.deb ... Unpacking e2fsprogs (1.47.0-2) over (1.46.2-2) ... Preparing to unpack .../mount_2.38.1-5+deb12u1_amd64.deb ... Unpacking mount (2.38.1-5+deb12u1) over (2.36.1-8+deb11u2) ... Preparing to unpack .../libpam-runtime_1.5.2-6+deb12u1_all.deb ... Unpacking libpam-runtime (1.5.2-6+deb12u1) over (1.4.0-9+deb11u1) ... Setting up libpam-runtime (1.5.2-6+deb12u1) ... (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 ... 40885 files and directories currently installed.) Preparing to unpack .../libacl1_2.3.1-3_amd64.deb ... Unpacking libacl1:amd64 (2.3.1-3) over (2.2.53-10) ... Setting up libacl1:amd64 (2.3.1-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40886 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.5.1-4_amd64.deb ... Unpacking libattr1:amd64 (1:2.5.1-4) over (1:2.4.48-6) ... Setting up libattr1:amd64 (1:2.5.1-4) ... Installing new version of config file /etc/xattr.conf ... (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 ... 40887 files and directories currently installed.) Preparing to unpack .../libmd0_1.0.4-2_amd64.deb ... Unpacking libmd0:amd64 (1.0.4-2) over (1.0.3-3) ... Setting up libmd0:amd64 (1.0.4-2) ... (Reading database ... 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Setting up r-cran-pkgload (1.3.2-1) ... Setting up r-bioc-biocfilecache (2.6.1+dfsg-1) ... Setting up r-cran-ggplot2 (3.4.1+dfsg-1) ... Setting up r-bioc-genomicranges (1.50.2+dfsg-1) ... Setting up r-bioc-rhdf5 (2.42.0+dfsg-1) ... Setting up r-bioc-biostrings (2.66.0-1) ... Setting up r-cran-testthat (3.1.6-1) ... Setting up r-bioc-rsamtools (2.14.0-1) ... Setting up r-bioc-summarizedexperiment (1.28.0+dfsg-1) ... Setting up r-bioc-keggrest (1.38.0+dfsg-1) ... Setting up r-bioc-annotationdbi (1.60.0-1) ... Setting up r-bioc-biomart (2.54.0+dfsg-1) ... Setting up r-bioc-genomicalignments (1.34.0-1) ... Setting up r-bioc-rtracklayer (1.58.0-1) ... Setting up r-bioc-genomicfeatures (1.50.4+dfsg-1) ... Setting up r-bioc-bsgenome (1.66.3-1) ... Setting up r-bioc-variantannotation (1.44.1-1) ... Setting up r-bioc-purecn (2.4.0+dfsg-1) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... Processing triggers for debianutils (5.7-0.5~deb12u1) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 2m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-yf', 'dist-upgrade'] 2m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m36.3s DUMP: 14b5c1b94e8a6c425b0bba0e4df4ee12 - 2m36.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m36.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-purecn'] 2m36.8s DUMP: Package: r-bioc-purecn Version: 2.4.0+dfsg-1 Installed-Size: 6925 Maintainer: Debian R Packages Maintainers Architecture: all Depends: r-base-core (>= 4.2.2.20221110-1), r-api-4.0, r-api-bioc-3.16, r-bioc-dnacopy, r-bioc-variantannotation (>= 1.14.1), r-bioc-genomicranges (>= 1.20.3), r-bioc-iranges (>= 2.2.1), r-cran-rcolorbrewer, r-bioc-s4vectors, r-cran-data.table, r-bioc-summarizedexperiment, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-bioc-rsamtools, r-bioc-biobase, r-bioc-biostrings, r-bioc-biocgenerics, r-bioc-rtracklayer, r-cran-ggplot2, r-cran-gridextra, r-cran-futile.logger, r-cran-vgam, r-cran-mclust, r-bioc-rhdf5, r-cran-matrix Suggests: r-bioc-biocparallel, r-bioc-biocstyle, r-cran-pscbs, r-cran-r.utils, r-cran-covr, r-cran-knitr, r-cran-optparse, r-bioc-org.hs.eg.db, r-cran-jsonlite, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Description-en: copy number calling and SNV classification using targeted short read sequencing This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide variants (SNVs) by somatic status and clonality. PureCN is designed for targeted short read sequencing data, integrates well with standard somatic variant detection and copy number pipelines, and has support for tumor samples without matching normal samples. Description-md5: 8e04360f54e8e8be0dd9281fc8ab5c7b Homepage: https://bioconductor.org/packages/PureCN/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-purecn/r-bioc-purecn_2.4.0+dfsg-1_all.deb Size: 6025432 MD5sum: 63310446847d2c1ec0b260bf4a1f8c41 SHA256: 6fca9f573ba611b541592defbfa086a288b8b048dbddd6652560a56050a14dca 2m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-purecn'] 2m36.8s INFO: apt-cache knows about the following packages: r-bioc-purecn 2m36.8s INFO: Running scripts pre_install 2m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 2m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 2m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 2m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 2m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 2m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 2m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 2m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 2m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 2m36.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.7,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 2m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 2m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 2m36.9s DUMP: r-bioc-purecn: Installed: 2.4.0+dfsg-1 Candidate: 2.4.0+dfsg-1 Version table: *** 2.4.0+dfsg-1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 2m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 2m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn'] 2m37.3s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-purecn is already the newest version (2.4.0+dfsg-1). The following packages were automatically installed and are no longer required: gcc-11-base libasan6 libgcc-10-dev libicu67 libldap-2.4-2 libstdc++-10-dev libtiff5 libtsan0 libwebp6 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn'] 2m37.3s INFO: Running scripts post_install 2m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 2m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 2m37.4s INFO: Running scripts post_distupgrade 2m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_exceptions'] 2m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_exceptions'] 2m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_zz_backports'] 2m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_zz_backports'] 2m37.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 2m39.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 2m39.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpypu09s1d to testing 2m39.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 2m39.9s INFO: Running scripts pre_distupgrade 2m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 2m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 2m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_exceptions'] 2m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_exceptions'] 2m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 2m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 2m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_database-server'] 2m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_database-server'] 2m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 2m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 2m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'update'] 2m43.7s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [169 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9318 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6215 kB] Fetched 15.7 MB in 3s (5985 kB/s) Reading package lists... 2m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'update'] 2m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-yf', 'dist-upgrade'] 5m3.0s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: gcc-11-base gcc-12-base libasan6 libgcc-10-dev libgcc-12-dev libicu67 libldap-2.4-2 libnsl-dev libperl5.36 libstdc++-10-dev libstdc++-12-dev libtiff5 libtirpc-dev libtsan0 libwebp6 perl-modules-5.36 r-bioc-biocfilecache r-bioc-biomart r-cran-assertthat r-cran-ellipsis r-cran-filelock r-cran-httr2 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libapt-pkg6.0 libboost1.74-dev libcurl4 libdb5.3 libext2fs2 libgdbm-compat4 libgdbm6 libglib2.0-0 libgnutls30 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhogweed6 libnettle8 libpng16-16 libpsl5 libreadline8 libssh2-1 libssl3 libtirpc3 libuv1 libxt6 The following NEW packages will be installed: fonts-dejavu-mono fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax gcc-14-base javascript-common libapt-pkg6.0t64 libbibtex-parser-perl libboost1.83-dev libbrotli-dev libcurl4t64 libdb5.3t64 libevent-2.1-7t64 libext2fs2t64 libgcc-14-dev libgdbm-compat4t64 libgdbm6t64 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgnutls30t64 libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhogweed6t64 libhwasan0 libidn2-dev libio-string-perl libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-lunr libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker libkpathsea6 liblatex-tounicode-perl liblua5.4-0 libmpfi0 libmpfr6 libnettle8t64 libnghttp2-dev libp11-kit-dev libperl5.38t64 libpkgconf3 libpng16-16t64 libpotrace0 libpsl-dev libpsl5t64 libptexenc1 libreadline8t64 librtmp-dev libsharpyuv0 libssh2-1-dev libssh2-1t64 libssl3t64 libstdc++-14-dev libsynctex2 libtasn1-6-dev libteckit0 libtexlua53-5 libtirpc3t64 libunbound8 libunistring5 libuv1t64 libxaw7 libxi6 libxmu6 libxpm4 libxt6t64 libyaml-0-2 libzstd-dev libzzip-0-13t64 login.defs nettle-dev node-bootstrap-sass node-normalize.css openssl-provider-legacy pandoc pandoc-data perl-modules-5.38 pkgconf pkgconf-bin r-bioc-biocstyle r-bioc-biocversion r-bioc-s4arrays r-bioc-sparsearray r-bioc-ucsc.utils r-cran-abind r-cran-base64enc r-cran-biocmanager r-cran-bookdown r-cran-bslib r-cran-commonmark r-cran-fontawesome r-cran-highr r-cran-htmltools r-cran-httpuv r-cran-httr2 r-cran-jquerylib r-cran-knitr r-cran-later r-cran-promises r-cran-rmarkdown r-cran-sass r-cran-shiny r-cran-sourcetools r-cran-tidyr r-cran-tinytex r-cran-xfun r-cran-xtable t1utils tex-common texlive-base texlive-bibtex-extra texlive-binaries texlive-latex-base The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils ca-certificates coreutils dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils fontconfig fontconfig-config fonts-dejavu-core gcc-11-base gcc-12-base gpgv grep gzip hdf5-helpers hostname init-system-helpers libacl1 libaec-dev libaec0 libasan6 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libblosc1 libboost-dev libbrotli1 libbsd0 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcairo2 libcap-ng0 libcap2 libcom-err2 libcrypt-dev libcrypt1 libcurl4-openssl-dev libdatrie1 libdebconfclient0 libdeflate0 libexpat1 libffi8 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-s1 libgcrypt20 libgfortran5 libgmp10 libgomp1 libgpg-error0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhdf5-dev libice6 libicu72 libidn2-0 libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libnghttp2-14 libnsl-dev libnsl2 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-8-0 libpixman-1-0 libquadmath0 librtmp1 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsm6 libsmartcols1 libsnappy1v5 libss2 libssl-dev libstdc++-12-dev libstdc++6 libsystemd0 libsz2 libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff6 libtinfo6 libtirpc-common libtirpc-dev libtk8.6 libtsan0 libtsan2 libubsan1 libudev1 libuuid1 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxft2 libxml2 libxrender1 libxss1 libxxhash0 libzstd1 linux-libc-dev littler login logsave mawk mount ncurses-base ncurses-bin openssl passwd perl perl-base r-base-core r-bioc-annotationdbi r-bioc-biobase r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-dnacopy r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics r-bioc-purecn r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-variantannotation r-bioc-xvector r-bioc-zlibbioc r-cran-askpass r-cran-bh r-cran-bitops r-cran-blob r-cran-brio r-cran-cachem r-cran-callr r-cran-cli r-cran-codetools r-cran-colorspace r-cran-cpp11 r-cran-curl r-cran-data.table r-cran-dbi r-cran-dbplyr r-cran-desc r-cran-digest r-cran-dplyr r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-filelock r-cran-formatr r-cran-fs r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-hms r-cran-httr r-cran-jsonlite r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-mclust r-cran-mgcv r-cran-mime r-cran-munsell r-cran-nlme r-cran-openssl r-cran-pillar r-cran-pkgbuild r-cran-pkgkitten r-cran-pkgload r-cran-png r-cran-prettyunits r-cran-processx r-cran-progress r-cran-ps r-cran-purrr r-cran-rcpp r-cran-rcurl r-cran-rjson r-cran-rlang r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-scales r-cran-stringi r-cran-stringr r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyselect r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml r-cran-xml2 r-cran-yaml readline-common sed sensible-utils sysvinit-utils tar tzdata usrmerge util-linux util-linux-extra x11-common zip zlib1g zlib1g-dev 288 upgraded, 134 newly installed, 25 to remove and 0 not upgraded. Need to get 473 MB of archives. After this operation, 740 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 base-files amd64 13.5 [72.8 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libnsl-dev amd64 1.3.0-3+b2 [67.2 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libcrypt-dev amd64 1:4.4.36-5 [118 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 libc6-dev amd64 2.40-2 [1932 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libc-dev-bin amd64 2.40-2 [51.8 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [189 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.2-1 [425 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libbrotli-dev amd64 1.1.0-2+b4 [313 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2 [128 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libidn2-dev amd64 2.3.7-2 [123 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.63.0-1 [74.8 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-3 [36.2 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-3 [29.9 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-3 [26.1 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libnghttp2-dev amd64 1.63.0-1 [115 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libpsl-dev amd64 0.21.2-1.1 [77.4 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b1 [559 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libc6 amd64 2.40-2 [2791 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libc-bin amd64 2.40-2 [613 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.50-4 [81.6 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libgcrypt20 amd64 1.11.0-6 [843 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 gcc-14-base amd64 14.2.0-3 [46.2 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 libgcc-s1 amd64 14.2.0-3 [72.8 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libstdc++6 amd64 14.2.0-3 [713 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libzstd1 amd64 1.5.6+dfsg-1 [303 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libnettle8t64 amd64 3.10-1 [303 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libhogweed6t64 amd64 3.10-1 [334 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-2 [424 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.6-2 [1444 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libapt-pkg6.0t64 amd64 2.9.8 [1045 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libbz2-1.0 amd64 1.0.8-6 [37.9 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libxxhash0 amd64 0.8.2-2+b1 [26.6 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 liblz4-1 amd64 1.9.4-3 [59.4 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 liblzma5 amd64 5.6.2-2 [254 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libcap2 amd64 1:2.66-5 [27.4 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libsystemd0 amd64 256.6-1 [381 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libudev1 amd64 256.6-1 [145 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1 [87.9 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.272 [10.0 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libpcre2-8-0 amd64 10.42-4+b1 [262 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libselinux1 amd64 3.7-3 [76.9 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 base-passwd amd64 3.6.4 [50.9 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 login.defs all 1:4.16.0-4 [185 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-7 [697 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libaudit-common all 1:3.1.2-4 [11.5 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libcap-ng0 amd64 0.8.5-2 [17.2 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libaudit1 amd64 1:3.1.2-4+b1 [49.0 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 libcrypt1 amd64 1:4.4.36-5 [89.8 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 perl-modules-5.38 all 5.38.2-5 [2905 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libperl5.38t64 amd64 5.38.2-5 [4275 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 perl amd64 5.38.2-5 [236 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 perl-base amd64 5.38.2-5 [1643 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 debconf all 1.5.87 [119 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libpam0g amd64 1.5.3-7 [67.7 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libpam-modules-bin amd64 1.5.3-7 [54.4 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libpam-modules amd64 1.5.3-7 [265 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libacl1 amd64 2.3.2-2 [32.4 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 libattr1 amd64 1:2.5.2-1 [22.5 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libmd0 amd64 1.1.0-2 [35.8 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 libbsd0 amd64 0.12.2-2 [131 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 libsemanage-common all 3.7-2 [7108 B] Get:68 http://deb.debian.org/debian trixie/main amd64 libsepol2 amd64 3.7-1 [293 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 libsemanage2 amd64 3.7-2 [91.3 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 passwd amd64 1:4.16.0-4 [1232 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 adduser all 3.137 [140 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 gpgv amd64 2.2.43-8+b1 [218 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 libseccomp2 amd64 2.5.5-1+b1 [47.3 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 apt amd64 2.9.8 [1410 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libssl-dev amd64 3.3.2-1 [2742 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 r-cran-sys amd64 3.4.2-1 [43.7 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 r-cran-askpass amd64 1.2.0-1 [24.0 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 r-cran-openssl amd64 2.2.0+dfsg-1 [401 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-1 [1381 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libcurl4-openssl-dev amd64 8.10.1-1 [462 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.10.1-1 [352 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 libhdf5-dev amd64 1.10.10+repack-4 [2652 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4 [1253 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 openssl-provider-legacy amd64 3.3.2-1 [298 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libssl3t64 amd64 3.3.2-1 [2271 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3 [187 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.19.0-3+b2 [48.9 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b1 [329 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b1 [640 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10 [181 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libunbound8 amd64 1.20.0-1+b1 [583 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libgnutls-dane0t64 amd64 3.8.6-2 [439 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libgnutls-openssl27t64 amd64 3.8.6-2 [439 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 libp11-kit-dev amd64 0.25.5-2 [208 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 libtasn1-6-dev amd64 4.19.0-3+b2 [98.0 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 nettle-dev amd64 3.10-1 [1316 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libgnutls28-dev amd64 3.8.6-2 [1381 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b4 [67.7 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 libssh2-1-dev amd64 1.11.0-7 [357 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 libzstd-dev amd64 1.5.6+dfsg-1 [368 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 r-cran-bitops amd64 1.0-8-1 [30.7 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 r-cran-rcurl amd64 1.98-1.16+dfsg-1 [799 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 r-cran-curl amd64 5.2.3+dfsg-1 [178 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-3 [837 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 r-bioc-dnacopy amd64 1.78.0-1 [378 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 libaec-dev amd64 1.1.3-1 [21.0 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 libaec0 amd64 1.1.3-1 [23.4 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 libsz2 amd64 1.1.3-1 [7740 B] Get:114 http://deb.debian.org/debian trixie/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-4 [89.5 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4 [63.9 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-4 [40.5 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-4 [130 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-4 [21.4 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3 [290 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 libjpeg-dev amd64 1:2.1.5-3 [71.9 kB] Get:122 http://deb.debian.org/debian trixie/main amd64 hdf5-helpers amd64 1.10.10+repack-4 [23.5 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.1-1 [29.1 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 libblosc1 amd64 1.21.5+ds-1+b1 [49.6 kB] Get:125 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5filters amd64 1.16.0+dfsg-1 [139 kB] Get:126 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5 amd64 2.48.0+dfsg-3 [857 kB] Get:127 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5lib amd64 1.26.0+dfsg-1 [104 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 r-bioc-biobase amd64 2.64.0-4 [2132 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 r-bioc-s4vectors amd64 0.42.1+dfsg-2 [1894 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 r-bioc-iranges amd64 2.38.1-1 [2305 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 r-cran-jsonlite amd64 1.8.9+dfsg-1 [445 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 r-cran-mime amd64 0.12-2 [35.6 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get:134 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:137 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get:138 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.3-1 [105 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get:141 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get:147 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get:149 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:150 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get:151 http://deb.debian.org/debian trixie/main amd64 r-cran-png amd64 0.1-8-1+b1 [41.5 kB] Get:152 http://deb.debian.org/debian trixie/main amd64 r-bioc-zlibbioc all 1.50.0+dfsg-2 [9876 B] Get:153 http://deb.debian.org/debian trixie/main amd64 r-bioc-xvector amd64 0.44.0-1 [622 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 r-bioc-ucsc.utils all 1.0.0+ds-2 [77.0 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 r-bioc-genomeinfodbdata all 1.2.12-1 [12.6 MB] Get:156 http://deb.debian.org/debian trixie/main amd64 r-bioc-genomeinfodb all 1.40.1+dfsg-1 [3843 kB] Get:157 http://deb.debian.org/debian trixie/main amd64 r-bioc-biostrings amd64 2.72.1+dfsg-1 [13.3 MB] Get:158 http://deb.debian.org/debian trixie/main amd64 r-bioc-keggrest all 1.44.1+dfsg-1 [183 kB] Get:159 http://deb.debian.org/debian trixie/main amd64 r-cran-dbi all 1.2.3-1 [852 kB] Get:160 http://deb.debian.org/debian trixie/main amd64 r-cran-rlang amd64 1.1.4-1 [1712 kB] Get:161 http://deb.debian.org/debian trixie/main amd64 r-cran-cli amd64 3.6.3-1 [1342 kB] Get:162 http://deb.debian.org/debian trixie/main amd64 r-cran-glue amd64 1.7.0-1 [157 kB] Get:163 http://deb.debian.org/debian trixie/main amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] Get:164 http://deb.debian.org/debian trixie/main amd64 r-cran-vctrs amd64 0.6.5-1 [1375 kB] Get:165 http://deb.debian.org/debian trixie/main amd64 r-cran-blob all 1.2.4-1 [49.6 kB] Get:166 http://deb.debian.org/debian trixie/main amd64 r-cran-cpp11 all 0.4.7-1 [219 kB] Get:167 http://deb.debian.org/debian trixie/main amd64 r-cran-rsqlite amd64 2.3.7-2 [1187 kB] Get:168 http://deb.debian.org/debian trixie/main amd64 r-bioc-annotationdbi all 1.66.0-1 [4682 kB] Get:169 http://deb.debian.org/debian trixie/main amd64 r-cran-matrixstats amd64 1.4.1-1 [510 kB] Get:170 http://deb.debian.org/debian trixie/main amd64 r-bioc-matrixgenerics all 1.16.0-2 [423 kB] Get:171 http://deb.debian.org/debian trixie/main amd64 r-bioc-genomicranges amd64 1.56.1+dfsg-1 [1842 kB] Get:172 http://deb.debian.org/debian trixie/main amd64 r-cran-abind all 1.4-8-1 [68.1 kB] Get:173 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:174 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:175 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:176 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-0-3 [4127 kB] Get:177 http://deb.debian.org/debian trixie/main amd64 r-bioc-s4arrays amd64 1.4.1+dfsg-1 [524 kB] Get:178 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-3 [137 kB] Get:179 http://deb.debian.org/debian trixie/main amd64 r-bioc-sparsearray amd64 1.4.8+dfsg-1 [1254 kB] Get:180 http://deb.debian.org/debian trixie/main amd64 r-bioc-delayedarray amd64 0.30.1+dfsg-1 [1847 kB] Get:181 http://deb.debian.org/debian trixie/main amd64 r-bioc-summarizedexperiment all 1.34.0+dfsg-1 [1102 kB] Get:182 http://deb.debian.org/debian trixie/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:183 http://deb.debian.org/debian trixie/main amd64 libitm1 amd64 14.2.0-3 [25.9 kB] Get:184 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-3 [9288 B] Get:185 http://deb.debian.org/debian trixie/main amd64 libasan8 amd64 14.2.0-3 [2728 kB] Get:186 http://deb.debian.org/debian trixie/main amd64 liblsan0 amd64 14.2.0-3 [1205 kB] Get:187 http://deb.debian.org/debian trixie/main amd64 libubsan1 amd64 14.2.0-3 [1075 kB] Get:188 http://deb.debian.org/debian trixie/main amd64 libstdc++-12-dev amd64 12.4.0-2 [2081 kB] Get:189 http://deb.debian.org/debian trixie/main amd64 libquadmath0 amd64 14.2.0-3 [145 kB] Get:190 http://deb.debian.org/debian trixie/main amd64 libgcc-12-dev amd64 12.4.0-2 [2431 kB] Get:191 http://deb.debian.org/debian trixie/main amd64 libtsan2 amd64 14.2.0-3 [2461 kB] Get:192 http://deb.debian.org/debian trixie/main amd64 gcc-12-base amd64 12.4.0-2 [42.9 kB] Get:193 http://deb.debian.org/debian trixie/main amd64 libhwasan0 amd64 14.2.0-3 [1488 kB] Get:194 http://deb.debian.org/debian trixie/main amd64 libgcc-14-dev amd64 14.2.0-3 [2671 kB] Get:195 http://deb.debian.org/debian trixie/main amd64 libstdc++-14-dev amd64 14.2.0-3 [2365 kB] Get:196 http://deb.debian.org/debian trixie/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:197 http://deb.debian.org/debian trixie/main amd64 libboost1.83-dev amd64 1.83.0-3.2 [10.6 MB] Get:198 http://deb.debian.org/debian trixie/main amd64 r-cran-bh all 1.84.0-1 [5912 B] Get:199 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocparallel amd64 1.38.0-2 [1325 kB] Get:200 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhtslib amd64 3.0.0+dfsg-1 [1334 kB] Get:201 http://deb.debian.org/debian trixie/main amd64 r-bioc-rsamtools amd64 2.20.0+dfsg-1 [3600 kB] Get:202 http://deb.debian.org/debian trixie/main amd64 r-bioc-genomicalignments amd64 1.40.0-1 [2160 kB] Get:203 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocio all 1.14.0+dfsg-1 [210 kB] Get:204 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:205 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get:206 http://deb.debian.org/debian trixie/main amd64 r-cran-xml amd64 3.99-0.17-1 [1761 kB] Get:207 http://deb.debian.org/debian trixie/main amd64 r-bioc-rtracklayer amd64 1.64.0-1 [5061 kB] Get:208 http://deb.debian.org/debian trixie/main amd64 r-cran-base64enc amd64 0.1-3-3 [27.9 kB] Get:209 http://deb.debian.org/debian trixie/main amd64 r-cran-digest amd64 0.6.37-1 [206 kB] Get:210 http://deb.debian.org/debian trixie/main amd64 r-cran-fastmap amd64 1.2.0-1 [72.2 kB] Get:211 http://deb.debian.org/debian trixie/main amd64 r-cran-htmltools amd64 0.5.8.1-1 [378 kB] Get:212 http://deb.debian.org/debian trixie/main amd64 r-cran-xfun amd64 0.47+dfsg-1 [527 kB] Get:213 http://deb.debian.org/debian trixie/main amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [397 kB] Get:214 http://deb.debian.org/debian trixie/main amd64 r-cran-highr all 0.11+dfsg-1 [38.3 kB] Get:215 http://deb.debian.org/debian trixie/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get:216 http://deb.debian.org/debian trixie/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get:217 http://deb.debian.org/debian trixie/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [162 kB] Get:218 http://deb.debian.org/debian trixie/main amd64 libjs-bootstrap all 3.4.1+dfsg-3 [172 kB] Get:219 http://deb.debian.org/debian trixie/main amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [144 kB] Get:220 http://deb.debian.org/debian trixie/main amd64 node-normalize.css all 8.0.1-5 [12.7 kB] Get:221 http://deb.debian.org/debian trixie/main amd64 r-cran-evaluate all 0.24.0-1 [93.7 kB] Get:222 http://deb.debian.org/debian trixie/main amd64 r-cran-yaml amd64 2.3.10-1 [108 kB] Get:223 http://deb.debian.org/debian trixie/main amd64 r-cran-knitr all 1.48+dfsg-1 [912 kB] Get:224 http://deb.debian.org/debian trixie/main amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.1 kB] Get:225 http://deb.debian.org/debian trixie/main amd64 libuv1t64 amd64 1.48.0-6 [148 kB] Get:226 http://deb.debian.org/debian trixie/main amd64 r-cran-fs amd64 1.6.4+dfsg-1 [247 kB] Get:227 http://deb.debian.org/debian trixie/main amd64 r-cran-sass amd64 0.4.9+dfsg-1 [965 kB] Get:228 http://deb.debian.org/debian trixie/main amd64 node-bootstrap-sass all 3.4.3-2 [186 kB] Get:229 http://deb.debian.org/debian trixie/main amd64 javascript-common all 11+nmu1 [6260 B] Get:230 http://deb.debian.org/debian trixie/main amd64 libjs-popper.js all 1.16.1+ds-6 [52.4 kB] Get:231 http://deb.debian.org/debian trixie/main amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [517 kB] Get:232 http://deb.debian.org/debian trixie/main amd64 r-cran-cachem amd64 1.1.0-1 [73.9 kB] Get:233 http://deb.debian.org/debian trixie/main amd64 r-cran-bslib all 0.7.0+dfsg-1 [4365 kB] Get:234 http://deb.debian.org/debian trixie/main amd64 r-cran-fontawesome all 0.5.2-1 [1286 kB] Get:235 http://deb.debian.org/debian trixie/main amd64 r-cran-tinytex all 0.51-1 [146 kB] Get:236 http://deb.debian.org/debian trixie/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get:237 http://deb.debian.org/debian trixie/main amd64 libjs-modernizr all 3.13.0-0.1 [191 kB] Get:238 http://deb.debian.org/debian trixie/main amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [41.7 kB] Get:239 http://deb.debian.org/debian trixie/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get:240 http://deb.debian.org/debian trixie/main amd64 pandoc-data all 3.1.3-3 [446 kB] Get:241 http://deb.debian.org/debian trixie/main amd64 liblua5.4-0 amd64 5.4.6-3+b1 [147 kB] Get:242 http://deb.debian.org/debian trixie/main amd64 libyaml-0-2 amd64 0.2.5-1+b1 [52.6 kB] Get:243 http://deb.debian.org/debian trixie/main amd64 pandoc amd64 3.1.3+ds-3+b1 [24.3 MB] Get:244 http://deb.debian.org/debian trixie/main amd64 r-cran-littler amd64 0.3.20-1 [102 kB] Get:245 http://deb.debian.org/debian trixie/main amd64 littler all 0.3.20-1 [16.0 kB] Get:246 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgkitten all 0.2.4-1 [29.1 kB] Get:247 http://deb.debian.org/debian trixie/main amd64 r-cran-rcpp amd64 1.0.13-1 [2082 kB] Get:248 http://deb.debian.org/debian trixie/main amd64 r-cran-later amd64 1.3.2+dfsg-1 [118 kB] Get:249 http://deb.debian.org/debian trixie/main amd64 r-cran-promises amd64 1.3.0+dfsg-1 [284 kB] Get:250 http://deb.debian.org/debian trixie/main amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [493 kB] Get:251 http://deb.debian.org/debian trixie/main amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] Get:252 http://deb.debian.org/debian trixie/main amd64 r-cran-sourcetools amd64 0.1.7-1-1 [45.9 kB] Get:253 http://deb.debian.org/debian trixie/main amd64 r-cran-commonmark amd64 1.9.1-1 [119 kB] Get:254 http://deb.debian.org/debian trixie/main amd64 libjs-json all 0~20221030+~1.0.8-1 [20.0 kB] Get:255 http://deb.debian.org/debian trixie/main amd64 libjs-es5-shim all 4.6.7-2 [47.4 kB] Get:256 http://deb.debian.org/debian trixie/main amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [32.1 kB] Get:257 http://deb.debian.org/debian trixie/main amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.2 kB] Get:258 http://deb.debian.org/debian trixie/main amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3672 B] Get:259 http://deb.debian.org/debian trixie/main amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [52.1 kB] Get:260 http://deb.debian.org/debian trixie/main amd64 libjs-d3 all 3.5.17-4 [132 kB] Get:261 http://deb.debian.org/debian trixie/main amd64 r-cran-withr all 3.0.0+dfsg-1 [240 kB] Get:262 http://deb.debian.org/debian trixie/main amd64 r-cran-shiny all 1.8.1.1+dfsg-1 [2894 kB] Get:263 http://deb.debian.org/debian trixie/main amd64 r-cran-rmarkdown all 2.28+dfsg-1 [1474 kB] Get:264 http://deb.debian.org/debian trixie/main amd64 libjs-lunr all 2.3.9~dfsg-2 [76.6 kB] Get:265 http://deb.debian.org/debian trixie/main amd64 r-cran-bookdown all 0.40+dfsg-1 [1404 kB] Get:266 http://deb.debian.org/debian trixie/main amd64 r-cran-ps amd64 1.8.0-1 [393 kB] Get:267 http://deb.debian.org/debian trixie/main amd64 r-cran-pillar all 1.9.0+dfsg-1 [463 kB] Get:268 http://deb.debian.org/debian trixie/main amd64 r-cran-tibble amd64 3.2.1+dfsg-2 [420 kB] Get:269 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.1-3 [28.3 MB] Get:270 http://deb.debian.org/debian trixie/main amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB] Get:271 http://deb.debian.org/debian trixie/main amd64 tex-common all 6.18 [32.5 kB] Get:272 http://deb.debian.org/debian trixie/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:273 http://deb.debian.org/debian trixie/main amd64 liblatex-tounicode-perl all 0.55-1 [28.8 kB] Get:274 http://deb.debian.org/debian trixie/main amd64 libbibtex-parser-perl all 1.05+dfsg-1 [17.4 kB] Get:275 http://deb.debian.org/debian trixie/main amd64 libkpathsea6 amd64 2024.20240313.70630+ds-4 [157 kB] Get:276 http://deb.debian.org/debian trixie/main amd64 libptexenc1 amd64 2024.20240313.70630+ds-4 [49.1 kB] Get:277 http://deb.debian.org/debian trixie/main amd64 libsynctex2 amd64 2024.20240313.70630+ds-4 [62.5 kB] Get:278 http://deb.debian.org/debian trixie/main amd64 libtexlua53-5 amd64 2024.20240313.70630+ds-4 [114 kB] Get:279 http://deb.debian.org/debian trixie/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:280 http://deb.debian.org/debian trixie/main amd64 libmpfr6 amd64 4.2.1-1+b1 [714 kB] Get:281 http://deb.debian.org/debian trixie/main amd64 libmpfi0 amd64 1.5.4+ds-3 [35.1 kB] Get:282 http://deb.debian.org/debian trixie/main amd64 libpotrace0 amd64 1.16-2+b1 [25.2 kB] Get:283 http://deb.debian.org/debian trixie/main amd64 libteckit0 amd64 2.5.12+ds1-1 [339 kB] Get:284 http://deb.debian.org/debian trixie/main amd64 debianutils amd64 5.20 [89.5 kB] Get:285 http://deb.debian.org/debian trixie/main amd64 tar amd64 1.35+dfsg-3 [813 kB] Get:286 http://deb.debian.org/debian trixie/main amd64 dpkg amd64 1.22.11 [1531 kB] Get:287 http://deb.debian.org/debian trixie/main amd64 sysvinit-utils amd64 3.10-2 [32.7 kB] Get:288 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:289 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.0.10-1+b1 [56.7 kB] Get:290 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.40.2-8 [35.6 kB] Get:291 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.3-1+b1 [33.6 kB] Get:292 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2 [187 kB] Get:293 http://deb.debian.org/debian trixie/main amd64 libxmu6 amd64 2:1.1.3-3+b2 [58.7 kB] Get:294 http://deb.debian.org/debian trixie/main amd64 libxpm4 amd64 1:3.5.17-1+b1 [56.1 kB] Get:295 http://deb.debian.org/debian trixie/main amd64 libxaw7 amd64 2:1.0.14-1+b2 [199 kB] Get:296 http://deb.debian.org/debian trixie/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get:297 http://deb.debian.org/debian trixie/main amd64 libzzip-0-13t64 amd64 0.13.72+dfsg.1-1.2+b1 [56.2 kB] Get:298 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:299 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.40.2-8 [168 kB] Get:300 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.40.2-8 [199 kB] Get:301 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-2 [54.4 kB] Get:302 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.54.0+ds-2 [223 kB] Get:303 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-2 [35.2 kB] Get:304 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1 [463 kB] Get:305 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:306 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:307 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get:308 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get:309 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.1-1 [1499 kB] Get:310 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 9.0.0-1 [474 kB] Get:311 http://deb.debian.org/debian trixie/main amd64 libpaper1 amd64 1.1.29+b1 [12.9 kB] Get:312 http://deb.debian.org/debian trixie/main amd64 texlive-binaries amd64 2024.20240313.70630+ds-4 [8493 kB] Get:313 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 1.1.29+b1 [9176 B] Get:314 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:315 http://deb.debian.org/debian trixie/main amd64 texlive-base all 2024.20240829-2 [22.7 MB] Get:316 http://deb.debian.org/debian trixie/main amd64 fonts-lmodern all 2.005-1 [4540 kB] Get:317 http://deb.debian.org/debian trixie/main amd64 texlive-latex-base all 2024.20240829-2 [1273 kB] Get:318 http://deb.debian.org/debian trixie/main amd64 texlive-bibtex-extra all 2024.20240829-1 [79.9 MB] Get:319 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocversion all 3.19.1-1 [10.9 kB] Get:320 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocstyle all 2.32.1+dfsg-1 [453 kB] Get:321 http://deb.debian.org/debian trixie/main amd64 r-bioc-genomicfeatures all 1.56.0+dfsg-1 [918 kB] Get:322 http://deb.debian.org/debian trixie/main amd64 r-cran-data.table amd64 1.15.4+dfsg-2.2 [1847 kB] Get:323 http://deb.debian.org/debian trixie/main amd64 r-cran-farver amd64 2.1.2-1 [1411 kB] Get:324 http://deb.debian.org/debian trixie/main amd64 r-cran-labeling all 0.4.3-1 [62.4 kB] Get:325 http://deb.debian.org/debian trixie/main amd64 r-cran-colorspace amd64 2.1-1+dfsg-1 [1716 kB] Get:326 http://deb.debian.org/debian trixie/main amd64 r-cran-munsell all 0.5.1-1 [237 kB] Get:327 http://deb.debian.org/debian trixie/main amd64 r-cran-viridislite all 0.4.2-2 [1299 kB] Get:328 http://deb.debian.org/debian trixie/main amd64 r-cran-scales all 1.3.0-1 [677 kB] Get:329 http://deb.debian.org/debian trixie/main amd64 r-cran-gtable all 0.3.5+dfsg-1 [222 kB] Get:330 http://deb.debian.org/debian trixie/main amd64 r-cran-mass amd64 7.3-61-1 [1112 kB] Get:331 http://deb.debian.org/debian trixie/main amd64 r-cran-nlme amd64 3.1.166-1 [2330 kB] Get:332 http://deb.debian.org/debian trixie/main amd64 r-cran-mgcv amd64 1.9-1-1 [3233 kB] Get:333 http://deb.debian.org/debian trixie/main amd64 r-cran-fansi amd64 1.0.5-1 [621 kB] Get:334 http://deb.debian.org/debian trixie/main amd64 r-cran-utf8 amd64 1.2.4-1 [133 kB] Get:335 http://deb.debian.org/debian trixie/main amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3933 kB] Get:336 http://deb.debian.org/debian trixie/main amd64 r-cran-vgam amd64 1.1-11-1 [7756 kB] Get:337 http://deb.debian.org/debian trixie/main amd64 r-cran-mclust amd64 6.1.1-1 [3981 kB] Get:338 http://deb.debian.org/debian trixie/main amd64 r-bioc-purecn all 2.10.0+dfsg-1 [6025 kB] Get:339 http://deb.debian.org/debian trixie/main amd64 r-bioc-bsgenome all 1.72.0-1 [6812 kB] Get:340 http://deb.debian.org/debian trixie/main amd64 r-cran-httr2 all 1.0.4-1 [652 kB] Get:341 http://deb.debian.org/debian trixie/main amd64 r-cran-tidyselect amd64 1.2.1+dfsg-1 [223 kB] Get:342 http://deb.debian.org/debian trixie/main amd64 r-cran-dplyr amd64 1.1.4-1 [1524 kB] Get:343 http://deb.debian.org/debian trixie/main amd64 r-cran-purrr amd64 1.0.2-1 [507 kB] Get:344 http://deb.debian.org/debian trixie/main amd64 r-cran-stringi amd64 1.8.4-1 [895 kB] Get:345 http://deb.debian.org/debian trixie/main amd64 r-cran-stringr all 1.5.1-1 [296 kB] Get:346 http://deb.debian.org/debian trixie/main amd64 r-cran-tidyr amd64 1.3.1-1 [1163 kB] Get:347 http://deb.debian.org/debian trixie/main amd64 r-cran-dbplyr all 2.5.0+dfsg-1 [1247 kB] Get:348 http://deb.debian.org/debian trixie/main amd64 r-cran-filelock amd64 1.0.3-1 [27.3 kB] Get:349 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocfilecache all 2.12.0+dfsg-1 [301 kB] Get:350 http://deb.debian.org/debian trixie/main amd64 r-cran-hms all 1.1.3-1 [104 kB] Get:351 http://deb.debian.org/debian trixie/main amd64 r-cran-prettyunits all 1.2.0-1 [162 kB] Get:352 http://deb.debian.org/debian trixie/main amd64 r-cran-progress all 1.2.3-1 [93.0 kB] Get:353 http://deb.debian.org/debian trixie/main amd64 r-cran-xml2 amd64 1.3.6-1 [320 kB] Get:354 http://deb.debian.org/debian trixie/main amd64 r-bioc-biomart all 2.60.1+dfsg-1 [452 kB] Get:355 http://deb.debian.org/debian trixie/main amd64 r-bioc-variantannotation amd64 1.50.0-1 [3508 kB] Get:356 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocgenerics all 0.50.0-2 [607 kB] Get:357 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:358 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:359 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:360 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:361 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:362 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:363 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:364 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get:365 http://deb.debian.org/debian trixie/main amd64 libtinfo6 amd64 6.5-2 [344 kB] Get:366 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:367 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB] Get:368 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.21-1 [47.3 kB] Get:369 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get:370 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1042 kB] Get:371 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get:372 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get:373 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:374 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:375 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:376 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get:377 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b1 [17.0 kB] Get:378 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.15-1 [791 kB] Get:379 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get:380 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get:381 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get:382 http://deb.debian.org/debian trixie/main amd64 linux-libc-dev all 6.10.11-1 [2399 kB] Get:383 http://deb.debian.org/debian trixie/main amd64 bash amd64 5.2.32-1+b1 [1500 kB] Get:384 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.40.2-8 [105 kB] Get:385 http://deb.debian.org/debian trixie/main amd64 usrmerge all 39 [13.1 kB] Get:386 http://deb.debian.org/debian trixie/main amd64 coreutils amd64 9.4-3.1 [2950 kB] Get:387 http://deb.debian.org/debian trixie/main amd64 dash amd64 0.5.12-9 [93.2 kB] Get:388 http://deb.debian.org/debian trixie/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:389 http://deb.debian.org/debian trixie/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:390 http://deb.debian.org/debian trixie/main amd64 grep amd64 3.11-4 [431 kB] Get:391 http://deb.debian.org/debian trixie/main amd64 gzip amd64 1.12-1.1 [133 kB] Get:392 http://deb.debian.org/debian trixie/main amd64 hostname amd64 3.23+nmu2 [10.6 kB] Get:393 http://deb.debian.org/debian trixie/main amd64 libpam-runtime all 1.5.3-7 [140 kB] Get:394 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.16.0-2+really2.40.2-8 [81.3 kB] Get:395 http://deb.debian.org/debian trixie/main amd64 ncurses-bin amd64 6.5-2 [433 kB] Get:396 http://deb.debian.org/debian trixie/main amd64 sed amd64 4.9-2 [329 kB] Get:397 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.40.2-8 [139 kB] Get:398 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.40.2-8 [1216 kB] Get:399 http://deb.debian.org/debian trixie/main amd64 util-linux-extra amd64 2.40.2-8 [265 kB] Get:400 http://deb.debian.org/debian trixie/main amd64 init-system-helpers all 1.67 [38.7 kB] Get:401 http://deb.debian.org/debian trixie/main amd64 ncurses-base all 6.5-2 [270 kB] Get:402 http://deb.debian.org/debian trixie/main amd64 logsave amd64 1.47.1-1 [22.7 kB] Get:403 http://deb.debian.org/debian trixie/main amd64 libext2fs2t64 amd64 1.47.1-1 [210 kB] Get:404 http://deb.debian.org/debian trixie/main amd64 e2fsprogs amd64 1.47.1-1 [583 kB] Get:405 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.40.2-8 [154 kB] Get:406 http://deb.debian.org/debian trixie/main amd64 mawk amd64 1.3.4.20240905-1 [138 kB] Get:407 http://deb.debian.org/debian trixie/main amd64 libasan6 amd64 11.5.0-1 [2046 kB] Get:408 http://deb.debian.org/debian trixie/main amd64 libtsan0 amd64 11.5.0-1 [2018 kB] Get:409 http://deb.debian.org/debian trixie/main amd64 gcc-11-base amd64 11.5.0-1 [42.1 kB] Get:410 http://deb.debian.org/debian trixie/main amd64 libss2 amd64 1.47.1-1 [27.6 kB] Get:411 http://deb.debian.org/debian trixie/main amd64 r-cran-brio amd64 1.1.5-1 [38.3 kB] Get:412 http://deb.debian.org/debian trixie/main amd64 r-cran-processx amd64 3.8.4-1 [352 kB] Get:413 http://deb.debian.org/debian trixie/main amd64 r-cran-callr all 3.7.6-1 [460 kB] Get:414 http://deb.debian.org/debian trixie/main amd64 r-cran-desc all 1.4.3-1 [351 kB] Get:415 http://deb.debian.org/debian trixie/main amd64 r-cran-formatr all 1.14-2 [152 kB] Get:416 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgbuild all 1.4.4-1 [213 kB] Get:417 http://deb.debian.org/debian trixie/main amd64 r-cran-rprojroot all 2.0.4-1 [124 kB] Get:418 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgload all 1.4.0-1 [247 kB] Get:419 http://deb.debian.org/debian trixie/main amd64 r-cran-rjson amd64 0.2.23-1 [100.0 kB] Get:420 http://deb.debian.org/debian trixie/main amd64 r-cran-rstudioapi all 0.16.0-1 [292 kB] Get:421 http://deb.debian.org/debian trixie/main amd64 r-cran-waldo all 0.5.3-1 [121 kB] Get:422 http://deb.debian.org/debian trixie/main amd64 r-cran-testthat amd64 3.2.1.1-1 [1619 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 473 MB in 7s (69.7 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 ... 42858 files and directories currently installed.) Preparing to unpack .../base-files_13.5_amd64.deb ... Unpacking base-files (13.5) over (12.4+deb12u7) ... Setting up base-files (13.5) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Updating /etc/profile to current default. (Reading database ... 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Preparing to unpack .../3-libc-dev-bin_2.40-2_amd64.deb ... Unpacking libc-dev-bin (2.40-2) over (2.36-9+deb12u8) ... Preparing to unpack .../4-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) over (1.3.3+ds-1) ... Preparing to unpack .../5-libtirpc-dev_1.3.4+ds-1.3_amd64.deb ... Unpacking libtirpc-dev:amd64 (1.3.4+ds-1.3) over (1.3.3+ds-1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../6-libunistring5_1.2-1_amd64.deb ... Unpacking libunistring5:amd64 (1.2-1) ... Setting up libunistring5:amd64 (1.2-1) ... (Reading database ... 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Setting up libidn2-0:amd64 (2.3.7-2) ... Selecting previously unselected package libidn2-dev:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 42903 files and directories currently installed.) Preparing to unpack .../0-libidn2-dev_2.3.7-2_amd64.deb ... Unpacking libidn2-dev:amd64 (2.3.7-2) ... Preparing to unpack .../1-libnghttp2-14_1.63.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.63.0-1) over (1.52.0-1+deb12u1) ... Selecting previously unselected package libpkgconf3:amd64. Preparing to unpack .../2-libpkgconf3_1.8.1-3_amd64.deb ... Unpacking libpkgconf3:amd64 (1.8.1-3) ... Selecting previously unselected package pkgconf-bin. Preparing to unpack .../3-pkgconf-bin_1.8.1-3_amd64.deb ... Unpacking pkgconf-bin (1.8.1-3) ... Selecting previously unselected package pkgconf:amd64. Preparing to unpack .../4-pkgconf_1.8.1-3_amd64.deb ... Unpacking pkgconf:amd64 (1.8.1-3) ... Selecting previously unselected package libnghttp2-dev:amd64. Preparing to unpack .../5-libnghttp2-dev_1.63.0-1_amd64.deb ... Unpacking libnghttp2-dev:amd64 (1.63.0-1) ... Selecting previously unselected package libpsl-dev:amd64. Preparing to unpack .../6-libpsl-dev_0.21.2-1.1_amd64.deb ... Unpacking libpsl-dev:amd64 (0.21.2-1.1) ... Preparing to unpack .../7-libgmp10_2%3a6.3.0+dfsg-2+b1_amd64.deb ... Unpacking libgmp10:amd64 (2:6.3.0+dfsg-2+b1) over (2:6.2.1+dfsg1-1.1) ... Setting up libgmp10:amd64 (2:6.3.0+dfsg-2+b1) ... (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 ... 43008 files and directories currently installed.) Preparing to unpack .../libc6_2.40-2_amd64.deb ... Unpacking libc6:amd64 (2.40-2) over (2.36-9+deb12u8) ... Setting up libc6:amd64 (2.40-2) ... (Reading database ... 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(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 ... 43010 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.11.0-6_amd64.deb ... Unpacking libgcrypt20:amd64 (1.11.0-6) over (1.10.1-3) ... Setting up libgcrypt20:amd64 (1.11.0-6) ... Selecting previously unselected package gcc-14-base:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43010 files and directories currently installed.) Preparing to unpack .../gcc-14-base_14.2.0-3_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-3) ... Setting up gcc-14-base:amd64 (14.2.0-3) ... (Reading database ... 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(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 ... 43015 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-3_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-3) over (12.2.0-14) ... Setting up libstdc++6:amd64 (14.2.0-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43015 files and directories currently installed.) Preparing to unpack .../libzstd1_1.5.6+dfsg-1_amd64.deb ... Unpacking libzstd1:amd64 (1.5.6+dfsg-1) over (1.5.4+dfsg2-5) ... Setting up libzstd1:amd64 (1.5.6+dfsg-1) ... dpkg: libnettle8:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libnettle8. libhogweed6:amd64 depends on libnettle8. libgnutls30:amd64 depends on libnettle8 (>= 3.7~). (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 ... 43015 files and directories currently installed.) Removing libnettle8:amd64 (3.8.1-2) ... Selecting previously unselected package libnettle8t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43007 files and directories currently installed.) Preparing to unpack .../libnettle8t64_3.10-1_amd64.deb ... Unpacking libnettle8t64:amd64 (3.10-1) ... Setting up libnettle8t64:amd64 (3.10-1) ... dpkg: libhogweed6:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libhogweed6. libgnutls30:amd64 depends on libhogweed6 (>= 3.6). (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 ... 43016 files and directories currently installed.) Removing libhogweed6:amd64 (3.8.1-2) ... Selecting previously unselected package libhogweed6t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43010 files and directories currently installed.) Preparing to unpack .../libhogweed6t64_3.10-1_amd64.deb ... Unpacking libhogweed6t64:amd64 (3.10-1) ... Setting up libhogweed6t64:amd64 (3.10-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43017 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.25.5-2_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-2) over (0.24.1-2) ... Setting up libp11-kit0:amd64 (0.25.5-2) ... dpkg: libgnutls30:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libgnutls30 (>= 3.6.14). libldap-2.5-0:amd64 depends on libgnutls30 (>= 3.7.5). libldap-2.4-2:amd64 depends on libgnutls30 (>= 3.7.0). apt depends on libgnutls30 (>= 3.7.5). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43017 files and directories currently installed.) Removing libgnutls30:amd64 (3.7.9-2+deb12u3) ... Selecting previously unselected package libgnutls30t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 42988 files and directories currently installed.) Preparing to unpack .../libgnutls30t64_3.8.6-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.6-2) ... Setting up libgnutls30t64:amd64 (3.8.6-2) ... dpkg: libapt-pkg6.0:amd64: dependency problems, but removing anyway as you requested: apt depends on libapt-pkg6.0 (>= 2.6.1). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43017 files and directories currently installed.) Removing libapt-pkg6.0:amd64 (2.6.1) ... Selecting previously unselected package libapt-pkg6.0t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 42968 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0t64_2.9.8_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.9.8) ... Setting up libapt-pkg6.0t64:amd64 (2.9.8) ... (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 ... 43018 files and directories currently installed.) Preparing to unpack .../libbz2-1.0_1.0.8-6_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.8-6) over (1.0.8-5+b1) ... Setting up libbz2-1.0:amd64 (1.0.8-6) ... (Reading database ... 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(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 ... 43018 files and directories currently installed.) Preparing to unpack .../libsystemd0_256.6-1_amd64.deb ... Unpacking libsystemd0:amd64 (256.6-1) over (252.30-1~deb12u2) ... Setting up libsystemd0:amd64 (256.6-1) ... (Reading database ... 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(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 ... 43019 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.4_amd64.deb ... Unpacking base-passwd (3.6.4) over (3.6.1) ... Setting up base-passwd (3.6.4) ... Selecting previously unselected package login.defs. (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 ... 43019 files and directories currently installed.) Preparing to unpack .../login.defs_1%3a4.16.0-4_all.deb ... Unpacking login.defs (1:4.16.0-4) ... Replacing files in old package login (1:4.13+dfsg1-1+b1) ... Setting up login.defs (1:4.16.0-4) ... Installing new version of config file /etc/login.defs ... (Reading database ... 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(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 ... 43023 files and directories currently installed.) Removing libdb5.3:amd64 (5.3.28+dfsg2-1) ... Selecting previously unselected package libdb5.3t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43017 files and directories currently installed.) Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-7_amd64.deb ... Unpacking libdb5.3t64:amd64 (5.3.28+dfsg2-7) ... Setting up libdb5.3t64:amd64 (5.3.28+dfsg2-7) ... (Reading database ... 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(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 ... 43023 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.5-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.5-2) over (0.8.3-1+b3) ... Setting up libcap-ng0:amd64 (0.8.5-2) ... (Reading database ... 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(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 ... 43023 files and directories currently installed.) Preparing to unpack .../libcrypt1_1%3a4.4.36-5_amd64.deb ... Unpacking libcrypt1:amd64 (1:4.4.36-5) over (1:4.4.33-2) ... Setting up libcrypt1:amd64 (1:4.4.36-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 43023 files and directories currently installed.) Preparing to unpack .../perl_5.38.2-5_amd64.deb ... Unpacking perl (5.38.2-5) over (5.36.0-7+deb12u1) ... Selecting previously unselected package perl-modules-5.38. Preparing to unpack .../perl-modules-5.38_5.38.2-5_all.deb ... Unpacking perl-modules-5.38 (5.38.2-5) ... dpkg: libgdbm6:amd64: dependency problems, but removing anyway as you requested: libperl5.36:amd64 depends on libgdbm6 (>= 1.21). libgdbm-compat4:amd64 depends on libgdbm6 (>= 1.16). (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 ... 44436 files and directories currently installed.) Removing libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm6t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44430 files and directories currently installed.) Preparing to unpack .../libgdbm6t64_1.24-2_amd64.deb ... Unpacking libgdbm6t64:amd64 (1.24-2) ... dpkg: libgdbm-compat4:amd64: dependency problems, but removing anyway as you requested: libperl5.36:amd64 depends on libgdbm-compat4 (>= 1.18-3). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44437 files and directories currently installed.) Removing libgdbm-compat4:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44431 files and directories currently installed.) Preparing to unpack .../libgdbm-compat4t64_1.24-2_amd64.deb ... Unpacking libgdbm-compat4t64:amd64 (1.24-2) ... Selecting previously unselected package libperl5.38t64:amd64. Preparing to unpack .../libperl5.38t64_5.38.2-5_amd64.deb ... Unpacking libperl5.38t64:amd64 (5.38.2-5) ... Preparing to unpack .../perl-base_5.38.2-5_amd64.deb ... Unpacking perl-base (5.38.2-5) over (5.36.0-7+deb12u1) ... Setting up perl-base (5.38.2-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44964 files and directories currently installed.) Preparing to unpack .../debconf_1.5.87_all.deb ... Unpacking debconf (1.5.87) over (1.5.82) ... Setting up debconf (1.5.87) ... Installing new version of config file /etc/debconf.conf ... (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 ... 44963 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.3-7_amd64.deb ... Unpacking libpam0g:amd64 (1.5.3-7) over (1.5.2-6+deb12u1) ... Setting up libpam0g:amd64 (1.5.3-7) ... (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 ... 44962 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.3-7_amd64.deb ... Unpacking libpam-modules-bin (1.5.3-7) over (1.5.2-6+deb12u1) ... Setting up libpam-modules-bin (1.5.3-7) ... (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 ... 44961 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.3-7_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.3-7) over (1.5.2-6+deb12u1) ... dpkg: warning: unable to delete old directory '/lib/x86_64-linux-gnu/security': Directory not empty Setting up libpam-modules:amd64 (1.5.3-7) ... Installing new version of config file /etc/security/namespace.init ... (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 ... 44961 files and directories currently installed.) Preparing to unpack .../libacl1_2.3.2-2_amd64.deb ... Unpacking libacl1:amd64 (2.3.2-2) over (2.3.1-3) ... Setting up libacl1:amd64 (2.3.2-2) ... (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 ... 44961 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.5.2-1_amd64.deb ... Unpacking libattr1:amd64 (1:2.5.2-1) over (1:2.5.1-4) ... Setting up libattr1:amd64 (1:2.5.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44961 files and directories currently installed.) Preparing to unpack .../libmd0_1.1.0-2_amd64.deb ... Unpacking libmd0:amd64 (1.1.0-2) over (1.0.4-2) ... Setting up libmd0:amd64 (1.1.0-2) ... (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 ... 44961 files and directories currently installed.) Preparing to unpack .../libbsd0_0.12.2-2_amd64.deb ... Unpacking libbsd0:amd64 (0.12.2-2) over (0.11.7-2) ... Setting up libbsd0:amd64 (0.12.2-2) ... (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 ... 44961 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.7-2_all.deb ... Unpacking libsemanage-common (3.7-2) over (3.4-1) ... Setting up libsemanage-common (3.7-2) ... (Reading database ... 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Unpacking libhdf5-dev (1.10.10+repack-4) over (1.10.8+repack1-1) ... dpkg: libhdf5-103-1:amd64: dependency problems, but removing anyway as you requested: r-bioc-rhdf5lib depends on libhdf5-103-1. r-bioc-rhdf5 depends on libhdf5-103-1. libhdf5-hl-100:amd64 depends on libhdf5-103-1. libhdf5-fortran-102:amd64 depends on libhdf5-103-1. libhdf5-cpp-103-1:amd64 depends on libhdf5-103-1. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44972 files and directories currently installed.) Removing libhdf5-103-1:amd64 (1.10.8+repack1-1) ... Selecting previously unselected package libhdf5-103-1t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44964 files and directories currently installed.) Preparing to unpack .../libhdf5-103-1t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... (Reading database ... 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Removing libssl3:amd64 (3.0.14-1~deb12u1) ... dpkg: libhdf5-hl-100:amd64: dependency problems, but removing anyway as you requested: libhdf5-hl-cpp-100:amd64 depends on libhdf5-hl-100. Removing libhdf5-hl-100:amd64 (1.10.8+repack1-1) ... Selecting previously unselected package openssl-provider-legacy. (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 ... 44938 files and directories currently installed.) Preparing to unpack .../openssl-provider-legacy_3.3.2-1_amd64.deb ... Unpacking openssl-provider-legacy (3.3.2-1) ... Selecting previously unselected package libssl3t64:amd64. Preparing to unpack .../libssl3t64_3.3.2-1_amd64.deb ... Unpacking libssl3t64:amd64 (3.3.2-1) ... Setting up libssl3t64:amd64 (3.3.2-1) ... Setting up openssl-provider-legacy (3.3.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44957 files and directories currently installed.) Preparing to unpack .../libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) over (2.1.28+dfsg-10) ... Preparing to unpack .../libldap-2.5-0_2.5.18+dfsg-3_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3) over (2.5.13+dfsg-5) ... Preparing to unpack .../libffi8_3.4.6-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.6-1) over (3.4.4-1) ... Setting up libffi8:amd64 (3.4.6-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 44956 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-3+b2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-3+b2) over (4.19.0-2) ... Setting up libtasn1-6:amd64 (4.19.0-3+b2) ... (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 ... 44957 files and directories currently installed.) Preparing to unpack .../00-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) over (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libgmpxx4ldbl:amd64. Preparing to unpack .../01-libgmpxx4ldbl_2%3a6.3.0+dfsg-2+b1_amd64.deb ... Unpacking libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b1) ... Selecting previously unselected package libgmp-dev:amd64. Preparing to unpack .../02-libgmp-dev_2%3a6.3.0+dfsg-2+b1_amd64.deb ... Unpacking libgmp-dev:amd64 (2:6.3.0+dfsg-2+b1) ... Selecting previously unselected package libevent-2.1-7t64:amd64. Preparing to unpack .../03-libevent-2.1-7t64_2.1.12-stable-10_amd64.deb ... Unpacking libevent-2.1-7t64:amd64 (2.1.12-stable-10) ... Selecting previously unselected package libunbound8:amd64. Preparing to unpack .../04-libunbound8_1.20.0-1+b1_amd64.deb ... Unpacking libunbound8:amd64 (1.20.0-1+b1) ... Selecting previously unselected package libgnutls-dane0t64:amd64. Preparing to unpack .../05-libgnutls-dane0t64_3.8.6-2_amd64.deb ... Unpacking libgnutls-dane0t64:amd64 (3.8.6-2) ... Selecting previously unselected package libgnutls-openssl27t64:amd64. Preparing to unpack .../06-libgnutls-openssl27t64_3.8.6-2_amd64.deb ... Unpacking libgnutls-openssl27t64:amd64 (3.8.6-2) ... Selecting previously unselected package libp11-kit-dev:amd64. Preparing to unpack .../07-libp11-kit-dev_0.25.5-2_amd64.deb ... Unpacking libp11-kit-dev:amd64 (0.25.5-2) ... Selecting previously unselected package libtasn1-6-dev:amd64. Preparing to unpack .../08-libtasn1-6-dev_4.19.0-3+b2_amd64.deb ... Unpacking libtasn1-6-dev:amd64 (4.19.0-3+b2) ... Selecting previously unselected package nettle-dev:amd64. Preparing to unpack .../09-nettle-dev_3.10-1_amd64.deb ... Unpacking nettle-dev:amd64 (3.10-1) ... Selecting previously unselected package libgnutls28-dev:amd64. Preparing to unpack .../10-libgnutls28-dev_3.8.6-2_amd64.deb ... Unpacking libgnutls28-dev:amd64 (3.8.6-2) ... Selecting previously unselected package librtmp-dev:amd64. Preparing to unpack .../11-librtmp-dev_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../12-libssh2-1t64_1.11.0-7_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-7) ... Selecting previously unselected package libssh2-1-dev:amd64. Preparing to unpack .../13-libssh2-1-dev_1.11.0-7_amd64.deb ... Unpacking libssh2-1-dev:amd64 (1.11.0-7) ... Selecting previously unselected package libzstd-dev:amd64. Preparing to unpack .../14-libzstd-dev_1.5.6+dfsg-1_amd64.deb ... Unpacking libzstd-dev:amd64 (1.5.6+dfsg-1) ... Preparing to unpack .../15-r-cran-bitops_1.0-8-1_amd64.deb ... Unpacking r-cran-bitops (1.0-8-1) over (1.0-7-1) ... Preparing to unpack .../16-r-cran-rcurl_1.98-1.16+dfsg-1_amd64.deb ... Unpacking r-cran-rcurl (1.98-1.16+dfsg-1) over (1.98-1.10+dfsg-1) ... Preparing to unpack .../17-r-cran-curl_5.2.3+dfsg-1_amd64.deb ... Unpacking r-cran-curl (5.2.3+dfsg-1) over (5.0.0+dfsg-1) ... 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(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 ... 45485 files and directories currently installed.) Preparing to unpack .../libhdf5-fortran-102t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... (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 ... 45493 files and directories currently installed.) Removing libhdf5-hl-cpp-100:amd64 (1.10.8+repack1-1) ... Selecting previously unselected package libhdf5-hl-100t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 45485 files and directories currently installed.) Preparing to unpack .../libhdf5-hl-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-hl-fortran-100t64:amd64. Preparing to unpack .../libhdf5-hl-fortran-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... (Reading database ... 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(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 ... 45493 files and directories currently installed.) Preparing to unpack .../00-libhdf5-cpp-103-1t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-hl-cpp-100t64:amd64. Preparing to unpack .../01-libhdf5-hl-cpp-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... 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(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 ... 57533 files and directories currently installed.) Preparing to unpack .../00-libglib2.0-0t64_2.82.1-1_amd64.deb ... libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:amd64.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... removed '/var/lib/dpkg/info/libglib2.0-0:amd64.postrm' Unpacking libglib2.0-0t64:amd64 (2.82.1-1) ... Preparing to unpack .../01-libharfbuzz0b_9.0.0-1_amd64.deb ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Preparing to unpack .../01-zip_3.0-14_amd64.deb ... Unpacking zip (3.0-14) over (3.0-13) ... Preparing to unpack .../02-libdeflate0_1.21-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.21-1) over (1.14-1) ... Preparing to unpack .../03-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) over (2024a-0+deb12u1) ... Preparing to unpack .../04-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Preparing to unpack .../libnsl2_1.3.0-3+b2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b2) over (1.3.0-2) ... Preparing to unpack .../linux-libc-dev_6.10.11-1_all.deb ... Unpacking linux-libc-dev (6.10.11-1) over (6.1.106-3) ... Preparing to unpack .../bash_5.2.32-1+b1_amd64.deb ... Unpacking bash (5.2.32-1+b1) over (5.2.15-2+b7) ... Setting up bash (5.2.32-1+b1) ... Installing new version of config file /etc/bash.bashrc ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 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(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 ... 68107 files and directories currently installed.) Preparing to unpack .../login_1%3a4.16.0-2+really2.40.2-8_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.2-8) over (1:4.13+dfsg1-1+b1) ... Setting up login (1:4.16.0-2+really2.40.2-8) ... Installing new version of config file /etc/pam.d/login ... (Reading database ... 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(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 ... 68034 files and directories currently installed.) Preparing to unpack .../archives/sed_4.9-2_amd64.deb ... Unpacking sed (4.9-2) over (4.9-1) ... Setting up sed (4.9-2) ... (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 ... 68034 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-8_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-8) over (2.38.1-5+deb12u1) ... Setting up libsmartcols1:amd64 (2.40.2-8) ... (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 ... 68035 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-8_amd64.deb ... Unpacking util-linux (2.40.2-8) over (2.38.1-5+deb12u1) ... Setting up util-linux (2.40.2-8) ... (Reading database ... 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Adding 'diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra' Unpacking util-linux-extra (2.40.2-8) over (2.38.1-5+deb12u1) ... dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/usr/lib/udev': Directory not empty Setting up util-linux-extra (2.40.2-8) ... (Reading database ... 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(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 ... 68046 files and directories currently installed.) Preparing to unpack .../logsave_1.47.1-1_amd64.deb ... Unpacking logsave (1.47.1-1) over (1.47.0-2) ... dpkg: libext2fs2:amd64: dependency problems, but removing anyway as you requested: e2fsprogs depends on libext2fs2 (= 1.47.0-2). (Reading database ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' Unpacking libext2fs2t64:amd64 (1.47.1-1) ... Setting up libcom-err2:amd64 (1.47.1-1) ... Setting up libext2fs2t64:amd64 (1.47.1-1) ... (Reading database ... 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Unpacking e2fsprogs (1.47.1-1) over (1.47.0-2) ... dpkg: warning: unable to delete old directory '/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/udev': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd': Directory not empty Preparing to unpack .../01-mount_2.40.2-8_amd64.deb ... Unpacking mount (2.40.2-8) over (2.38.1-5+deb12u1) ... Preparing to unpack .../02-mawk_1.3.4.20240905-1_amd64.deb ... Unpacking mawk (1.3.4.20240905-1) over (1.3.4.20200120-3.1) ... Preparing to unpack .../03-libasan6_11.5.0-1_amd64.deb ... Unpacking libasan6:amd64 (11.5.0-1) over (11.3.0-12) ... Preparing to unpack .../04-libtsan0_11.5.0-1_amd64.deb ... Unpacking libtsan0:amd64 (11.5.0-1) over (11.3.0-12) ... Preparing to unpack .../05-gcc-11-base_11.5.0-1_amd64.deb ... Unpacking gcc-11-base:amd64 (11.5.0-1) over (11.3.0-12) ... 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Setting up libxdmcp6:amd64 (1:1.1.2-3+b1) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libxcb1:amd64 (1.17.0-2) ... Setting up fonts-mathjax (2.7.9+dfsg-1) ... Setting up libicu72:amd64 (72.1-5) ... Setting up libzstd-dev:amd64 (1.5.6+dfsg-1) ... Setting up liblerc4:amd64 (4.0.0+ds-4+b1) ... Setting up hdf5-helpers (1.10.10+repack-4) ... Setting up libjs-mathjax (2.7.9+dfsg-1) ... Setting up libdatrie1:amd64 (0.2.13-3) ... Setting up libjs-popper.js (1.16.1+ds-6) ... Setting up libxcb-render0:amd64 (1.17.0-2) ... Setting up libyaml-0-2:amd64 (0.2.5-1+b1) ... Setting up libjs-sifter.js (0.6.0+dfsg-3) ... Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libjs-lunr (2.3.9~dfsg-2) ... Setting up libbrotli1:amd64 (1.1.0-2+b4) ... Setting up liblatex-tounicode-perl (0.55-1) ... Setting up libuv1t64:amd64 (1.48.0-6) ... Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.63.0-1) ... Setting up libdeflate0:amd64 (1.21-1) ... Setting up linux-libc-dev (6.10.11-1) ... Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10) ... Setting up libjs-microplugin.js (0.0.3+dfsg-1.1) ... Setting up libxcb-shm0:amd64 (1.17.0-2) ... Setting up libpaper-utils (1.1.29+b1) ... Setting up libgomp1:amd64 (14.2.0-3) ... Setting up libjs-modernizr (3.13.0-0.1) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libaec0:amd64 (1.1.3-1) ... Setting up libasan6:amd64 (11.5.0-1) ... Setting up libjs-jquery-datatables (1.11.5+dfsg-2) ... Setting up libpsl-dev:amd64 (0.21.2-1.1) ... Setting up libsnappy1v5:amd64 (1.2.1-1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up gcc-12-base:amd64 (12.4.0-2) ... Setting up libjs-es5-shim (4.6.7-2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Oct 4 11:17:10 UTC 2024. Universal Time is now: Fri Oct 4 11:17:10 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libio-string-perl (1.08-4) ... Setting up zip (3.0-14) ... Setting up libblas3:amd64 (3.12.0-3) ... Setting up libunbound8:amd64 (1.20.0-1+b1) ... Setting up libpkgconf3:amd64 (1.8.1-3) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b1) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3) ... Setting up libzzip-0-13t64:amd64 (0.13.72+dfsg.1-1.2+b1) ... Setting up libgnutls-dane0t64:amd64 (3.8.6-2) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libmpfr6:amd64 (4.2.1-1+b1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... 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Building format(s) --all. This may take some time... done. 5m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-yf', 'dist-upgrade'] 5m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 5m6.4s DUMP: 683dd0781e6902ab267434a7dae06a5c - 5m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 5m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-purecn'] 5m6.7s DUMP: Package: r-bioc-purecn Version: 2.10.0+dfsg-1 Installed-Size: 6925 Maintainer: Debian R Packages Maintainers Architecture: all Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-dnacopy (>= 1.78.0), r-bioc-variantannotation (>= 1.50.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-iranges (>= 2.2.1), r-cran-rcolorbrewer, r-bioc-s4vectors (>= 0.42.1), r-cran-data.table, r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-genomeinfodb (>= 1.40.1), r-bioc-genomicfeatures (>= 1.56.0), r-bioc-rsamtools (>= 2.20.0), r-bioc-biobase (>= 2.64.0), r-bioc-biostrings (>= 2.72.1), r-bioc-biocgenerics (>= 0.50.0), r-bioc-rtracklayer (>= 1.64.0), r-cran-ggplot2, r-cran-gridextra, r-cran-futile.logger, r-cran-vgam, r-cran-mclust, r-bioc-rhdf5 (>= 2.48.0), r-cran-matrix Suggests: r-bioc-biocparallel, r-bioc-biocstyle, r-cran-pscbs, r-cran-r.utils, r-cran-covr, r-cran-knitr, r-cran-optparse, r-bioc-org.hs.eg.db, r-cran-jsonlite, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Description-en: copy number calling and SNV classification using targeted short read sequencing This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide variants (SNVs) by somatic status and clonality. PureCN is designed for targeted short read sequencing data, integrates well with standard somatic variant detection and copy number pipelines, and has support for tumor samples without matching normal samples. Description-md5: 8e04360f54e8e8be0dd9281fc8ab5c7b Homepage: https://bioconductor.org/packages/PureCN/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-purecn/r-bioc-purecn_2.10.0+dfsg-1_all.deb Size: 6024628 MD5sum: 447e2f3dee396559743640986fea1844 SHA256: 4209ecfa239c84bca37df7143dbdb2469844be5d397482f95d63e9d7b2898c10 5m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-purecn'] 5m6.7s INFO: apt-cache knows about the following packages: r-bioc-purecn 5m6.7s INFO: Running scripts pre_install 5m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 5m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 5m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 5m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 5m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 5m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 5m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 5m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 5m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 5m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 5m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 5m6.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 5m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 5m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 5m6.9s DUMP: r-bioc-purecn: Installed: 2.10.0+dfsg-1 Candidate: 2.10.0+dfsg-1 Version table: *** 2.10.0+dfsg-1 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 100 /var/lib/dpkg/status 5m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 5m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn'] 5m7.8s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-purecn is already the newest version (2.10.0+dfsg-1). The following packages were automatically installed and are no longer required: gcc-11-base gcc-12-base libasan6 libgcc-10-dev libgcc-12-dev libicu67 libldap-2.4-2 libnsl-dev libperl5.36 libstdc++-10-dev libstdc++-12-dev libtiff5 libtirpc-dev libtsan0 libwebp6 perl-modules-5.36 r-bioc-biocfilecache r-bioc-biomart r-cran-assertthat r-cran-ellipsis r-cran-filelock r-cran-httr2 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn'] 5m7.8s INFO: Running scripts post_install 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 5m7.8s INFO: Running scripts post_distupgrade 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_base_cleanup'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_base_cleanup'] 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_exceptions'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_exceptions'] 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_squeeze-backports'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_squeeze-backports'] 5m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_zz_backports'] 5m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_distupgrade_zz_backports'] 5m7.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 5m13.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 5m13.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 5m17.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 5m17.0s INFO: Running scripts pre_install 5m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 5m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_database-server'] 5m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 5m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_exceptions'] 5m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 5m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_extras'] 5m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 5m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture'] 5m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 5m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_install_foreign_architecture_i386'] 5m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 5m17.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 5m17.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy'] 5m17.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 5m17.1s DUMP: r-bioc-purecn: Installed: 2.10.0+dfsg-1 Candidate: 2.10.0+dfsg-1 Version table: *** 2.10.0+dfsg-1 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 100 /var/lib/dpkg/status 5m17.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-cache', 'policy', 'r-bioc-purecn'] 5m17.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn=2.10.0+dfsg-1'] 5m17.6s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-purecn is already the newest version (2.10.0+dfsg-1). The following packages were automatically installed and are no longer required: gcc-11-base gcc-12-base libasan6 libgcc-10-dev libgcc-12-dev libicu67 libldap-2.4-2 libnsl-dev libperl5.36 libstdc++-10-dev libstdc++-12-dev libtiff5 libtirpc-dev libtsan0 libwebp6 perl-modules-5.36 r-bioc-biocfilecache r-bioc-biomart r-cran-assertthat r-cran-ellipsis r-cran-filelock r-cran-httr2 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 5m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', '-y', 'install', 'r-bioc-purecn=2.10.0+dfsg-1'] 5m17.6s INFO: Running scripts post_install 5m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 5m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_install_exceptions'] 5m18.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 5m21.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 5m21.8s INFO: /lib converted to /usr/lib by /usr merge 5m21.8s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 5m27.3s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', '-ac', '--ignore-obsolete'] 6m5.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', '-ac', '--ignore-obsolete'] 6m5.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 6m5.1s DUMP: 0.15.6 6m5.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 6m5.1s INFO: Running adequate version 0.15.6 now. 6m5.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'r-bioc-purecn'] 6m5.3s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'r-bioc-purecn'] 6m5.3s INFO: Running scripts pre_remove 6m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 6m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 6m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 6m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 6m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 6m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 6m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 6m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 6m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 6m19.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 6m19.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_exceptions'] 6m19.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/pre_remove_exceptions'] 6m19.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 6m19.4s DUMP: install ok installed adduser adduser 3.137 install ok installed apt apt 2.9.8 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1+b1 install ok installed bsdutils bsdutils 1:2.40.2-8 install ok installed ca-certificates ca-certificates 20240203 install ok installed coreutils coreutils 9.4-3.1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig fontconfig 2.15.0-1.1 install ok installed fontconfig-config fontconfig-config 2.15.0-1.1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed 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-lmodern fonts-lmodern 2.005-1 install ok installed fonts-mathjax fonts-mathjax 2.7.9+dfsg-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-11-base:amd64 gcc-11-base 11.5.0-1 install ok installed gcc-12-base:amd64 gcc-12-base 12.4.0-2 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-3 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.43-8+b1 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hdf5-helpers hdf5-helpers 1.10.10+repack-4 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed javascript-common javascript-common 11+nmu1 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libaec-dev:amd64 libaec-dev 1.1.3-1 install ok installed libaec0:amd64 libaec0 1.1.3-1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libasan6:amd64 libasan6 11.5.0-1 install ok installed libasan8:amd64 libasan8 14.2.0-3 install ok installed libatomic1:amd64 libatomic1 14.2.0-3 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:3.1.2-4 install ok installed libaudit1:amd64 libaudit1 1:3.1.2-4+b1 install ok installed libbibtex-parser-perl libbibtex-parser-perl 1.05+dfsg-1 install ok installed libblas3:amd64 libblas3 3.12.0-3 install ok installed libblkid1:amd64 libblkid1 2.40.2-8 install ok installed libblosc1:amd64 libblosc1 1.21.5+ds-1+b1 install ok installed libboost-dev:amd64 libboost-dev 1.83.0.2+b2 install ok installed libboost1.83-dev:amd64 libboost1.83-dev 1.83.0-3.2 install ok installed libbrotli-dev:amd64 libbrotli-dev 1.1.0-2+b4 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b4 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-2 install ok installed libc-dev-bin libc-dev-bin 2.40-2 install ok installed libc6:amd64 libc6 2.40-2 install ok installed libc6-dev:amd64 libc6-dev 2.40-2 install ok installed libcairo2:amd64 libcairo2 1.18.2-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.36-5 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl4-openssl-dev:amd64 libcurl4-openssl-dev 8.10.1-1 install ok installed libcurl4t64:amd64 libcurl4t64 8.10.1-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-3 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libdeflate0:amd64 libdeflate0 1.21-1 install ok installed libevent-2.1-7t64:amd64 libevent-2.1-7t64 2.1.12-stable-10 install ok installed libexpat1:amd64 libexpat1 2.6.3-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1.1 install ok installed libfreetype6:amd64 libfreetype6 2.13.3+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.15-1 install ok installed libgcc-10-dev:amd64 libgcc-10-dev 10.2.1-6 install ok installed libgcc-12-dev:amd64 libgcc-12-dev 12.4.0-2 install ok installed libgcc-14-dev:amd64 libgcc-14-dev 14.2.0-3 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.24-2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.24-2 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-3 deinstall ok config-files libglib2.0-0:amd64 libglib2.0-0 2.74.6-2+deb12u3 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.82.1-1 install ok installed libgmp-dev:amd64 libgmp-dev 2:6.3.0+dfsg-2+b1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgmpxx4ldbl:amd64 libgmpxx4ldbl 2:6.3.0+dfsg-2+b1 install ok installed libgnutls-dane0t64:amd64 libgnutls-dane0t64 3.8.6-2 install ok installed libgnutls-openssl27t64:amd64 libgnutls-openssl27t64 3.8.6-2 install ok installed libgnutls28-dev:amd64 libgnutls28-dev 3.8.6-2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-3 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2 install ok 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libjs-jquery-selectize.js 0.12.6+dfsg-1.1 install ok installed libjs-jquery-ui libjs-jquery-ui 1.13.2+dfsg-1 install ok installed libjs-json libjs-json 0~20221030+~1.0.8-1 install ok installed libjs-lunr libjs-lunr 2.3.9~dfsg-2 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 3.13.0-0.1 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-twitter-bootstrap-datepicker libjs-twitter-bootstrap-datepicker 1.3.1+dfsg1-4.1 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-3 install ok installed libkpathsea6:amd64 libkpathsea6 2024.20240313.70630+ds-4 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 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r-bioc-biocfilecache 2.12.0+dfsg-1 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.50.0-2 install ok installed r-bioc-biocio r-bioc-biocio 1.14.0+dfsg-1 install ok installed r-bioc-biocparallel r-bioc-biocparallel 1.38.0-2 install ok installed r-bioc-biocstyle r-bioc-biocstyle 2.32.1+dfsg-1 install ok installed r-bioc-biocversion r-bioc-biocversion 3.19.1-1 install ok installed r-bioc-biomart r-bioc-biomart 2.60.1+dfsg-1 install ok installed r-bioc-biostrings r-bioc-biostrings 2.72.1+dfsg-1 install ok installed r-bioc-bsgenome r-bioc-bsgenome 1.72.0-1 install ok installed r-bioc-delayedarray r-bioc-delayedarray 0.30.1+dfsg-1 install ok installed r-bioc-dnacopy r-bioc-dnacopy 1.78.0-1 install ok installed r-bioc-genomeinfodb r-bioc-genomeinfodb 1.40.1+dfsg-1 install ok installed r-bioc-genomeinfodbdata r-bioc-genomeinfodbdata 1.2.12-1 install ok installed r-bioc-genomicalignments r-bioc-genomicalignments 1.40.0-1 install ok installed r-bioc-genomicfeatures r-bioc-genomicfeatures 1.56.0+dfsg-1 install ok installed r-bioc-genomicranges r-bioc-genomicranges 1.56.1+dfsg-1 install ok installed r-bioc-iranges r-bioc-iranges 2.38.1-1 install ok installed r-bioc-keggrest r-bioc-keggrest 1.44.1+dfsg-1 install ok installed r-bioc-matrixgenerics r-bioc-matrixgenerics 1.16.0-2 install ok installed r-bioc-purecn r-bioc-purecn 2.10.0+dfsg-1 install ok installed r-bioc-rhdf5 r-bioc-rhdf5 2.48.0+dfsg-3 install ok installed r-bioc-rhdf5filters r-bioc-rhdf5filters 1.16.0+dfsg-1 install ok installed r-bioc-rhdf5lib r-bioc-rhdf5lib 1.26.0+dfsg-1 install ok installed r-bioc-rhtslib r-bioc-rhtslib 3.0.0+dfsg-1 install ok installed r-bioc-rsamtools r-bioc-rsamtools 2.20.0+dfsg-1 install ok installed r-bioc-rtracklayer r-bioc-rtracklayer 1.64.0-1 install ok installed r-bioc-s4arrays r-bioc-s4arrays 1.4.1+dfsg-1 install ok installed r-bioc-s4vectors r-bioc-s4vectors 0.42.1+dfsg-2 install ok installed r-bioc-sparsearray r-bioc-sparsearray 1.4.8+dfsg-1 install ok 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r-cran-digest 0.6.37-1 install ok installed r-cran-dplyr r-cran-dplyr 1.1.4-1 install ok installed r-cran-ellipsis r-cran-ellipsis 0.3.2-2 install ok installed r-cran-evaluate r-cran-evaluate 0.24.0-1 install ok installed r-cran-fansi r-cran-fansi 1.0.5-1 install ok installed r-cran-farver r-cran-farver 2.1.2-1 install ok installed r-cran-fastmap r-cran-fastmap 1.2.0-1 install ok installed r-cran-filelock r-cran-filelock 1.0.3-1 install ok installed r-cran-fontawesome r-cran-fontawesome 0.5.2-1 install ok installed r-cran-formatr r-cran-formatr 1.14-2 install ok installed r-cran-fs r-cran-fs 1.6.4+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-generics r-cran-generics 0.1.3-1 install ok installed r-cran-ggplot2 r-cran-ggplot2 3.5.1+dfsg-1 install ok installed r-cran-glue r-cran-glue 1.7.0-1 install ok installed r-cran-gridextra r-cran-gridextra 2.3-3 install ok installed r-cran-gtable r-cran-gtable 0.3.5+dfsg-1 install ok installed r-cran-highr r-cran-highr 0.11+dfsg-1 install ok installed r-cran-hms r-cran-hms 1.1.3-1 install ok installed r-cran-htmltools r-cran-htmltools 0.5.8.1-1 install ok installed r-cran-httpuv r-cran-httpuv 1.6.15+dfsg-1 install ok installed r-cran-httr r-cran-httr 1.4.7+dfsg-1 install ok installed r-cran-httr2 r-cran-httr2 1.0.4-1 install ok installed r-cran-isoband r-cran-isoband 0.2.7-1 install ok installed r-cran-jquerylib r-cran-jquerylib 0.1.4+dfsg-4 install ok installed r-cran-jsonlite r-cran-jsonlite 1.8.9+dfsg-1 install ok installed r-cran-knitr r-cran-knitr 1.48+dfsg-1 install ok installed r-cran-labeling r-cran-labeling 0.4.3-1 install ok installed r-cran-lambda.r r-cran-lambda.r 1.2.4-2 install ok installed r-cran-later r-cran-later 1.3.2+dfsg-1 install ok installed r-cran-lattice r-cran-lattice 0.22-6-1 install ok installed r-cran-lifecycle r-cran-lifecycle 1.0.4+dfsg-1 install ok installed r-cran-littler r-cran-littler 0.3.20-1 install ok installed r-cran-magrittr r-cran-magrittr 2.0.3-1 install ok installed r-cran-mass r-cran-mass 7.3-61-1 install ok installed r-cran-matrix r-cran-matrix 1.7-0-3 install ok installed r-cran-matrixstats r-cran-matrixstats 1.4.1-1 install ok installed r-cran-mclust r-cran-mclust 6.1.1-1 install ok installed r-cran-memoise r-cran-memoise 2.0.1-1 install ok installed r-cran-mgcv r-cran-mgcv 1.9-1-1 install ok installed r-cran-mime r-cran-mime 0.12-2 install ok installed r-cran-munsell r-cran-munsell 0.5.1-1 install ok installed r-cran-nlme r-cran-nlme 3.1.166-1 install ok installed r-cran-openssl r-cran-openssl 2.2.0+dfsg-1 install ok installed r-cran-pillar r-cran-pillar 1.9.0+dfsg-1 install ok installed r-cran-pkgbuild r-cran-pkgbuild 1.4.4-1 install ok installed r-cran-pkgconfig r-cran-pkgconfig 2.0.3-2 install ok installed r-cran-pkgkitten r-cran-pkgkitten 0.2.4-1 install ok installed r-cran-pkgload r-cran-pkgload 1.4.0-1 install ok installed r-cran-plogr r-cran-plogr 0.2.0-3 install ok installed r-cran-png r-cran-png 0.1-8-1+b1 install ok installed r-cran-praise r-cran-praise 1.0.0-4 install ok installed r-cran-prettyunits r-cran-prettyunits 1.2.0-1 install ok installed r-cran-processx r-cran-processx 3.8.4-1 install ok installed r-cran-progress r-cran-progress 1.2.3-1 install ok installed r-cran-promises r-cran-promises 1.3.0+dfsg-1 install ok installed r-cran-ps r-cran-ps 1.8.0-1 install ok installed r-cran-purrr r-cran-purrr 1.0.2-1 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 1.0.13-1 install ok installed r-cran-rcurl r-cran-rcurl 1.98-1.16+dfsg-1 install ok installed r-cran-rematch2 r-cran-rematch2 2.1.2-2 install ok installed r-cran-restfulr r-cran-restfulr 0.0.15-1 install ok installed r-cran-rjson r-cran-rjson 0.2.23-1 install ok installed r-cran-rlang r-cran-rlang 1.1.4-1 install ok installed r-cran-rmarkdown r-cran-rmarkdown 2.28+dfsg-1 install ok installed r-cran-rprojroot r-cran-rprojroot 2.0.4-1 install ok installed r-cran-rsqlite r-cran-rsqlite 2.3.7-2 install ok installed r-cran-rstudioapi r-cran-rstudioapi 0.16.0-1 install ok installed r-cran-sass r-cran-sass 0.4.9+dfsg-1 install ok installed r-cran-scales r-cran-scales 1.3.0-1 install ok installed r-cran-shiny r-cran-shiny 1.8.1.1+dfsg-1 install ok installed r-cran-snow r-cran-snow 1:0.4.4-2 install ok installed r-cran-sourcetools r-cran-sourcetools 0.1.7-1-1 install ok installed r-cran-stringi r-cran-stringi 1.8.4-1 install ok installed r-cran-stringr r-cran-stringr 1.5.1-1 install ok installed r-cran-sys r-cran-sys 3.4.2-1 install ok installed r-cran-testthat r-cran-testthat 3.2.1.1-1 install ok installed r-cran-tibble r-cran-tibble 3.2.1+dfsg-2 install ok installed r-cran-tidyr r-cran-tidyr 1.3.1-1 install ok installed r-cran-tidyselect r-cran-tidyselect 1.2.1+dfsg-1 install ok installed r-cran-tinytex r-cran-tinytex 0.51-1 install ok installed r-cran-utf8 r-cran-utf8 1.2.4-1 install ok installed r-cran-vctrs r-cran-vctrs 0.6.5-1 install ok installed r-cran-vgam r-cran-vgam 1.1-11-1 install ok installed r-cran-viridislite r-cran-viridislite 0.4.2-2 install ok installed r-cran-waldo r-cran-waldo 0.5.3-1 install ok installed r-cran-withr r-cran-withr 3.0.0+dfsg-1 install ok installed r-cran-xfun r-cran-xfun 0.47+dfsg-1 install ok installed r-cran-xml r-cran-xml 3.99-0.17-1 install ok installed r-cran-xml2 r-cran-xml2 1.3.6-1 install ok installed r-cran-xtable r-cran-xtable 1:1.8-4-2 install ok installed r-cran-yaml r-cran-yaml 2.3.10-1 install ok installed readline-common readline-common 8.2-5 install ok installed rpcsvc-proto rpcsvc-proto 1.4.3-1 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed sysvinit-utils sysvinit-utils 3.10-2 install ok installed t1utils t1utils 1.41-4 install ok installed tar tar 1.35+dfsg-3 install ok installed tex-common tex-common 6.18 install ok installed texlive-base texlive-base 2024.20240829-2 install ok installed texlive-bibtex-extra texlive-bibtex-extra 2024.20240829-1 install ok installed texlive-binaries texlive-binaries 2024.20240313.70630+ds-4 install ok installed texlive-latex-base texlive-latex-base 2024.20240829-2 install ok installed tzdata tzdata 2024a-4 install ok installed ucf ucf 3.0043+nmu1 install ok installed unzip unzip 6.0-28 install ok installed usrmerge usrmerge 39 install ok installed util-linux util-linux 2.40.2-8 install ok installed util-linux-extra util-linux-extra 2.40.2-8 install ok installed x11-common x11-common 1:7.7+23.1 install ok installed xdg-utils xdg-utils 1.1.3-4.1 install ok installed zip zip 3.0-14 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.3.dfsg+really1.3.1-1 6m19.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 6m19.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lmodern', 'fonts-mathjax', 'gcc-11-base:amd64', 'hdf5-helpers', 'javascript-common', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libbibtex-parser-perl', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libio-string-perl', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-selectize.js', 'libjs-jquery-ui', 'libjs-json', 'libjs-lunr', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-twitter-bootstrap-datepicker', 'libkpathsea6:amd64', 'liblapack3:amd64', 'liblatex-tounicode-perl', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmpfi0:amd64', 'libmpfr6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpotrace0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libptexenc1:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsynctex2:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libteckit0:amd64', 'libtexlua53-5:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libzstd-dev:amd64', 'libzzip-0-13t64:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openssl', 'pandoc', 'pandoc-data', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocfilecache', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biocstyle', 'r-bioc-biocversion', 'r-bioc-biomart', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-dnacopy', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicfeatures', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-variantannotation', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-assertthat', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-bookdown', 'r-cran-brio', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-commonmark', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-dbi', 'r-cran-dbplyr', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-filelock', 'r-cran-fontawesome', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-highr', 'r-cran-hms', 'r-cran-htmltools', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-httr2', 'r-cran-isoband', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mclust', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-openssl', 'r-cran-pillar', 'r-cran-pkgbuild', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-progress', 'r-cran-promises', 'r-cran-ps', 'r-cran-purrr', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-rematch2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstudioapi', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-tinytex', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xml2', 'r-cran-xtable', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 't1utils', 'tex-common', 'texlive-base', 'texlive-bibtex-extra', 'texlive-binaries', 'texlive-latex-base', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-purecn'] 6m26.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Package 'libglib2.0-0' is not installed, so not removed The following packages were automatically installed and are no longer required: gcc-12-base libperl5.36 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax gcc-11-base hdf5-helpers javascript-common libaec-dev libaec0 libasan6 libasan8 libatomic1 libbibtex-parser-perl libblas3 libblosc1 libboost-dev libboost1.83-dev libbrotli-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4-openssl-dev libcurl4t64 libdatrie1 libdeflate0 libevent-2.1-7t64 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgcc-12-dev libgcc-14-dev libgfortran5 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhwasan0 libice6 libicu67 libicu72 libidn2-dev libio-string-perl libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-lunr libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker libkpathsea6 liblapack3 liblatex-tounicode-perl libldap-2.4-2 libldap-2.5-0 liblerc4 liblsan0 liblua5.4-0 libmpfi0 libmpfr6 libnghttp2-14 libnghttp2-dev libnsl-dev libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpkgconf3 libpng16-16t64 libpotrace0 libpsl-dev libpsl5t64 libptexenc1 libquadmath0 libreadline8t64 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev libssh2-1t64 libssl-dev libstdc++-10-dev libstdc++-12-dev libstdc++-14-dev libsynctex2 libsz2 libtasn1-6-dev libtcl8.6 libteckit0 libtexlua53-5 libthai-data libthai0 libtiff5 libtiff6 libtirpc-dev libtk8.6 libtsan0 libtsan2 libubsan1 libunbound8 libuv1t64 libwebp6 libwebp7 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxi6 libxml2 libxmu6 libxpm4 libxrender1 libxss1 libxt6t64 libyaml-0-2 libzstd-dev libzzip-0-13t64 linux-libc-dev littler nettle-dev node-bootstrap-sass node-html5shiv node-normalize.css openssl pandoc pandoc-data pkgconf pkgconf-bin r-base-core r-bioc-annotationdbi r-bioc-biobase r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biocstyle r-bioc-biocversion r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-dnacopy r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics r-bioc-purecn r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-variantannotation r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-assertthat r-cran-base64enc r-cran-bh r-cran-biocmanager r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-bookdown r-cran-brio r-cran-bslib r-cran-cachem r-cran-callr r-cran-cli r-cran-codetools r-cran-colorspace r-cran-commonmark r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-data.table r-cran-dbi r-cran-dbplyr r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-filelock r-cran-fontawesome r-cran-formatr r-cran-fs r-cran-futile.logger r-cran-futile.options r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-highr r-cran-hms r-cran-htmltools r-cran-httpuv r-cran-httr r-cran-httr2 r-cran-isoband r-cran-jquerylib r-cran-jsonlite r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-mclust r-cran-memoise r-cran-mgcv r-cran-mime r-cran-munsell r-cran-nlme r-cran-openssl r-cran-pillar r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-png r-cran-praise r-cran-prettyunits r-cran-processx r-cran-progress r-cran-promises r-cran-ps r-cran-purrr r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-rematch2 r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-sass r-cran-scales r-cran-shiny r-cran-snow r-cran-sourcetools r-cran-stringi r-cran-stringr r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-tinytex r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xfun r-cran-xml r-cran-xml2 r-cran-xtable r-cran-yaml readline-common rpcsvc-proto sensible-utils t1utils tex-common texlive-base texlive-bibtex-extra texlive-binaries texlive-latex-base ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 0 newly installed, 352 to remove and 0 not upgraded. After this operation, 1388 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 ... 68129 files and directories currently installed.) Removing r-bioc-purecn (2.10.0+dfsg-1) ... Removing r-bioc-variantannotation (1.50.0-1) ... Removing r-bioc-genomicfeatures (1.56.0+dfsg-1) ... Removing r-bioc-bsgenome (1.72.0-1) ... Removing r-bioc-biocstyle (2.32.1+dfsg-1) ... Removing r-cran-bookdown (0.40+dfsg-1) ... Removing r-cran-rmarkdown (2.28+dfsg-1) ... Removing r-cran-shiny (1.8.1.1+dfsg-1) ... Removing texlive-bibtex-extra (2024.20240829-1) ... Removing fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Removing r-cran-knitr (1.48+dfsg-1) ... Removing libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... Removing libjs-bootstrap (3.4.1+dfsg-3) ... Removing fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... Removing texlive-latex-base (2024.20240829-2) ... Removing fonts-lmodern (2.005-1) ... Removing libjs-mathjax (2.7.9+dfsg-1) ... Removing fonts-mathjax (2.7.9+dfsg-1) ... Removing libstdc++-10-dev:amd64 (10.2.1-6) ... Removing libgcc-10-dev:amd64 (10.2.1-6) ... Removing libtsan0:amd64 (11.5.0-1) ... Removing libasan6:amd64 (11.5.0-1) ... Removing gcc-11-base:amd64 (11.5.0-1) ... Removing r-bioc-rhdf5 (2.48.0+dfsg-3) ... Removing r-bioc-rhdf5filters (1.16.0+dfsg-1) ... Removing r-bioc-rhdf5lib (1.26.0+dfsg-1) ... Removing libhdf5-dev (1.10.10+repack-4) ... Removing hdf5-helpers (1.10.10+repack-4) ... Removing r-cran-bslib (0.7.0+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 libaec-dev:amd64 (1.1.3-1) ... Removing libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Removing libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... Removing libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Removing libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... Removing libstdc++-12-dev:amd64 (12.4.0-2) ... Removing libgcc-12-dev:amd64 (12.4.0-2) ... Removing texlive-base (2024.20240829-2) ... Removing libbibtex-parser-perl (1.05+dfsg-1) ... Removing r-cran-mclust (6.1.1-1) ... Removing r-cran-ggplot2 (3.5.1+dfsg-1) ... Removing r-cran-mgcv (1.9-1-1) ... Removing libblosc1:amd64 (1.21.5+ds-1+b1) ... Removing libcurl4-openssl-dev:amd64 (8.10.1-1) ... Removing libbrotli-dev:amd64 (1.1.0-2+b4) ... Removing r-bioc-biomart (2.60.1+dfsg-1) ... Removing r-cran-httr2 (1.0.4-1) ... Removing librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing r-bioc-annotationdbi (1.66.0-1) ... Removing r-bioc-keggrest (1.44.1+dfsg-1) ... Removing libjpeg-dev:amd64 (1:2.1.5-3) ... Removing libjpeg62-turbo-dev:amd64 (1:2.1.5-3) ... Removing libgnutls28-dev:amd64 (3.8.6-2) ... Removing libtiff5:amd64 (4.2.0-1+deb11u5) ... Removing libgnutls-dane0t64:amd64 (3.8.6-2) ... Removing libunbound8:amd64 (1.20.0-1+b1) ... Removing libevent-2.1-7t64:amd64 (2.1.12-stable-10) ... Removing r-bioc-dnacopy (1.78.0-1) ... Removing nettle-dev:amd64 (3.10-1) ... Removing libgmp-dev:amd64 (2:6.3.0+dfsg-2+b1) ... Removing libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b1) ... Removing libgnutls-openssl27t64:amd64 (3.8.6-2) ... Removing r-cran-data.table (1.15.4+dfsg-2.2) ... Removing libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Removing libicu67:amd64 (67.1-7) ... Removing r-bioc-biocfilecache (2.12.0+dfsg-1) ... Removing r-cran-dbplyr (2.5.0+dfsg-1) ... Removing r-cran-tidyr (1.3.1-1) ... Removing r-cran-stringr (1.5.1-1) ... Removing r-cran-stringi (1.8.4-1) ... Removing r-cran-xml2 (1.3.6-1) ... Removing libidn2-dev:amd64 (2.3.7-2) ... Removing libio-string-perl (1.08-4) ... Removing libjs-d3 (3.5.17-4) ... Removing libjs-es5-shim (4.6.7-2) ... Removing r-cran-highr (0.11+dfsg-1) ... Removing libjs-highlight.js (9.18.5+dfsg1-2) ... Removing r-cran-jquerylib (0.1.4+dfsg-4) ... Removing libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... Removing libjs-jquery-datatables (1.11.5+dfsg-2) ... Removing libjs-jquery-ui (1.13.2+dfsg-1) ... Removing libjs-json (0~20221030+~1.0.8-1) ... Removing libjs-lunr (2.3.9~dfsg-2) ... Removing libjs-microplugin.js (0.0.3+dfsg-1.1) ... Removing libjs-modernizr (3.13.0-0.1) ... Removing libjs-prettify (2015.12.04+dfsg-1.1) ... Removing libjs-sifter.js (0.6.0+dfsg-3) ... Removing liblatex-tounicode-perl (0.55-1) ... Removing libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Removing pandoc (3.1.3+ds-3+b1) ... Removing liblua5.4-0:amd64 (5.4.6-3+b1) ... Removing libnghttp2-dev:amd64 (1.63.0-1) ... Removing libnsl-dev:amd64 (1.3.0-3+b2) ... Removing libp11-kit-dev:amd64 (0.25.5-2) ... Removing pkgconf:amd64 (1.8.1-3) ... Removing pkgconf-bin (1.8.1-3) ... Removing libpkgconf3:amd64 (1.8.1-3) ... Removing r-cran-png (0.1-8-1+b1) ... Removing libpsl-dev:amd64 (0.21.2-1.1) ... Removing libsnappy1v5:amd64 (1.2.1-1) ... Removing libssh2-1-dev:amd64 (1.11.0-7) ... Removing libssl-dev:amd64 (3.3.2-1) ... Removing libtasn1-6-dev:amd64 (4.19.0-3+b2) ... Removing libtirpc-dev:amd64 (1.3.4+ds-1.3) ... Removing r-cran-httpuv (1.6.15+dfsg-1) ... Removing r-cran-sass (0.4.9+dfsg-1) ... Removing libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Removing libyaml-0-2:amd64 (0.2.5-1+b1) ... Removing libzstd-dev:amd64 (1.5.6+dfsg-1) ... Removing littler (0.3.20-1) ... 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 pandoc-data (3.1.3-3) ... Removing r-bioc-biocversion (3.19.1-1) ... Removing r-cran-assertthat (0.2.1-2) ... Removing r-cran-fontawesome (0.5.2-1) ... Removing r-cran-htmltools (0.5.8.1-1) ... Removing r-cran-base64enc (0.1-3-3) ... Removing r-cran-biocmanager (1.30.25+dfsg-1) ... Removing r-cran-rsqlite (2.3.7-2) ... Removing r-cran-bit64 (4.0.5-1) ... Removing r-cran-bit (4.0.5-1) ... Removing r-cran-blob (1.2.4-1) ... Removing r-cran-testthat (3.2.1.1-1) ... Removing r-cran-brio (1.1.5-1) ... Removing r-cran-memoise (2.0.1-1) ... Removing r-cran-cachem (1.1.0-1) ... Removing r-cran-pkgload (1.4.0-1) ... Removing r-cran-pkgbuild (1.4.4-1) ... Removing r-cran-callr (3.7.6-1) ... Removing r-cran-waldo (0.5.3-1) ... Removing r-cran-dplyr (1.1.4-1) ... Removing r-cran-tidyselect (1.2.1+dfsg-1) ... Removing r-cran-scales (1.3.0-1) ... Removing r-cran-munsell (0.5.1-1) ... Removing r-cran-colorspace (2.1-1+dfsg-1) ... Removing r-cran-commonmark (1.9.1-1) ... Removing r-cran-diffobj (0.3.5-1+b1) ... Removing r-cran-progress (1.2.3-1) ... Removing r-cran-dbi (1.2.3-1) ... Removing r-cran-desc (1.4.3-1) ... Removing r-cran-digest (0.6.37-1) ... Removing r-cran-ellipsis (0.3.2-2) ... Removing r-cran-evaluate (0.24.0-1) ... Removing r-cran-rematch2 (2.1.2-2) ... Removing r-cran-tibble (3.2.1+dfsg-2) ... Removing r-cran-pillar (1.9.0+dfsg-1) ... Removing r-cran-fansi (1.0.5-1) ... Removing r-cran-farver (2.1.2-1) ... Removing r-cran-filelock (1.0.3-1) ... Removing r-cran-generics (0.1.3-1) ... Removing r-cran-purrr (1.0.2-1) ... Removing r-cran-gridextra (2.3-3) ... Removing r-cran-gtable (0.3.5+dfsg-1) ... Removing r-cran-hms (1.1.3-1) ... Removing r-cran-isoband (0.2.7-1) ... Removing r-cran-labeling (0.4.3-1) ... Removing r-cran-nlme (3.1.166-1) ... Removing r-cran-mass (7.3-61-1) ... Removing r-cran-pkgconfig (2.0.3-2) ... Removing r-cran-plogr (0.2.0-3) ... Removing r-cran-praise (1.0.0-4) ... Removing r-cran-prettyunits (1.2.0-1) ... 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Removing r-cran-snow (1:0.4.4-2) ... Removing r-cran-promises (1.3.0+dfsg-1) ... Removing texlive-binaries (2024.20240313.70630+ds-4) ... Removing libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... Removing libsz2:amd64 (1.1.3-1) ... Removing libaec0:amd64 (1.1.3-1) ... Removing r-cran-bh (1.84.0-1) ... Removing libboost-dev:amd64 (1.83.0.2+b2) ... Removing libboost1.83-dev:amd64 (1.83.0-3.2) ... Removing libstdc++-14-dev:amd64 (14.2.0-3) ... Removing libgcc-14-dev:amd64 (14.2.0-3) ... Removing libasan8:amd64 (14.2.0-3) ... Removing r-bioc-biostrings (2.72.1+dfsg-1) ... Removing libhwasan0:amd64 (14.2.0-3) ... Removing libxaw7:amd64 (2:1.0.14-1+b2) ... Removing libxmu6:amd64 (2:1.1.3-3+b2) ... Removing libitm1:amd64 (14.2.0-3) ... Removing libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Removing libptexenc1:amd64 (2024.20240313.70630+ds-4) ... Removing libkpathsea6:amd64 (2024.20240313.70630+ds-4) ... Removing liblsan0:amd64 (14.2.0-3) ... Removing libmpfi0:amd64 (1.5.4+ds-3) ... Removing libmpfr6:amd64 (4.2.1-1+b1) ... Removing libpotrace0:amd64 (1.16-2+b1) ... Removing libquadmath0:amd64 (14.2.0-3) ... Removing libsynctex2:amd64 (2024.20240313.70630+ds-4) ... Removing libteckit0:amd64 (2.5.12+ds1-1) ... Removing libtexlua53-5:amd64 (2024.20240313.70630+ds-4) ... Removing libtsan2:amd64 (14.2.0-3) ... Removing libubsan1:amd64 (14.2.0-3) ... Removing r-cran-fs (1.6.4+dfsg-1) ... Removing libuv1t64:amd64 (1.48.0-6) ... Removing libxi6:amd64 (2:1.8.2-1) ... Removing libxpm4:amd64 (1:3.5.17-1+b1) ... Removing libzzip-0-13t64:amd64 (0.13.72+dfsg.1-1.2+b1) ... Removing r-bioc-biobase (2.64.0-4) ... Removing r-bioc-rhtslib (3.0.0+dfsg-1) ... Removing r-cran-restfulr (0.0.15-1) ... Removing r-bioc-genomicranges (1.56.1+dfsg-1) ... Removing r-bioc-genomeinfodb (1.40.1+dfsg-1) ... Removing r-bioc-ucsc.utils (1.0.0+ds-2) ... Removing r-bioc-biocio (1.14.0+dfsg-1) ... Removing r-bioc-genomeinfodbdata (1.2.12-1) ... Removing r-bioc-matrixgenerics (1.16.0-2) ... Removing r-cran-httr (1.4.7+dfsg-1) ... Removing r-cran-openssl (2.2.0+dfsg-1) ... Removing r-cran-askpass (1.2.0-1) ... Removing r-cran-rcurl (1.98-1.16+dfsg-1) ... Removing r-cran-bitops (1.0-8-1) ... Removing r-cran-vctrs (0.6.5-1) ... Removing r-cran-codetools (0.2-20-1) ... Removing r-cran-cpp11 (0.4.7-1) ... Removing r-cran-crayon (1.5.2-1) ... Removing r-cran-fastmap (1.2.0-1) ... Removing r-cran-futile.logger (1.4.3-4) ... Removing r-cran-lambda.r (1.2.4-2) ... Removing r-cran-formatr (1.14-2) ... Removing r-cran-futile.options (1.0.1-3) ... Removing r-cran-lifecycle (1.0.4+dfsg-1) ... Removing r-cran-glue (1.7.0-1) ... Removing r-cran-jsonlite (1.8.9+dfsg-1) ... Removing r-cran-later (1.3.2+dfsg-1) ... Removing r-cran-magrittr (2.0.3-1) ... Removing r-cran-matrixstats (1.4.1-1) ... Removing r-cran-mime (0.12-2) ... Removing r-cran-r6 (2.5.1-1) ... Removing r-cran-rjson (0.2.23-1) ... Removing r-cran-rlang (1.1.4-1) ... Removing r-cran-sys (3.4.2-1) ... Removing r-cran-xml (3.99-0.17-1) ... Removing r-cran-yaml (2.3.10-1) ... Removing tex-common (6.18) ... Removing t1utils (1.41-4) ... Removing r-cran-matrix (1.7-0-3) ... Removing r-cran-rcpp (1.0.13-1) ... Removing r-cran-curl (5.2.3+dfsg-1) ... Removing r-bioc-xvector (0.44.0-1) ... Removing r-bioc-zlibbioc (1.50.0+dfsg-2) ... Removing zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Removing libc6-dev:amd64 (2.40-2) ... Removing libc-dev-bin (2.40-2) ... Removing libcrypt-dev:amd64 (1:4.4.36-5) ... Removing libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Removing linux-libc-dev (6.10.11-1) ... Removing r-bioc-iranges (2.38.1-1) ... Removing r-cran-cli (3.6.3-1) ... Removing r-cran-lattice (0.22-6-1) ... Removing r-cran-littler (0.3.20-1) ... Removing r-cran-pkgkitten (0.2.4-1) ... Removing rpcsvc-proto (1.4.3-1) ... Removing r-bioc-s4vectors (0.42.1+dfsg-2) ... Removing r-bioc-biocgenerics (0.50.0-2) ... Removing r-base-core (4.4.1-3) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.54.0+ds-2) ... Removing libpangoft2-1.0-0:amd64 (1.54.0+ds-2) ... Removing libpango-1.0-0:amd64 (1.54.0+ds-2) ... Removing fontconfig (2.15.0-1.1) ... Removing libtk8.6:amd64 (8.6.15-1) ... Removing libxft2:amd64 (2.3.6-1+b1) ... Removing libharfbuzz0b:amd64 (9.0.0-1) ... Removing libglib2.0-0t64:amd64 (2.82.1-1) ... Removing libatomic1:amd64 (14.2.0-3) ... Removing liblapack3:amd64 (3.12.0-3) ... Removing libblas3:amd64 (3.12.0-3) ... Removing libcairo2:amd64 (1.18.2-2) ... Removing libcurl4t64:amd64 (8.10.1-1) ... Removing libthai0:amd64 (0.1.29-2) ... Removing libdatrie1:amd64 (0.2.13-3) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.21-1) ... Removing libfribidi0:amd64 (1.0.15-1) ... Removing libgfortran5:amd64 (14.2.0-3) ... Removing libgomp1:amd64 (14.2.0-3) ... Removing libgraphite2-3:amd64 (1.3.14-2) ... Removing libxt6t64:amd64 (1:1.2.1-1.2) ... Removing libsm6:amd64 (2:1.2.3-1+b1) ... Removing libice6:amd64 (2:1.0.10-1+b1) ... Removing libicu72:amd64 (72.1-5) ... Removing libjbig0:amd64 (2.1-6.1+b1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing libnghttp2-14:amd64 (1.63.0-1) ... Removing libpaper-utils (1.1.29+b1) ... Removing libpaper1:amd64 (1.1.29+b1) ... Removing libpixman-1-0:amd64 (0.42.2-1+b1) ... Removing libpsl5t64:amd64 (0.21.2-1.1) ... Removing libreadline8t64:amd64 (8.2-5) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Removing libwebp7:amd64 (1.4.0-0.1) ... Removing libsharpyuv0:amd64 (1.4.0-0.1) ... Removing libssh2-1t64:amd64 (1.11.0-7) ... Removing libtcl8.6:amd64 (8.6.15+dfsg-2) ... Removing libthai-data (0.1.29-2) ... Removing libxss1:amd64 (1:1.2.3-1+b1) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b1) ... Removing libxcb-shm0:amd64 (1.17.0-2) ... Removing libxcb-render0:amd64 (1.17.0-2) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing openssl (3.3.2-1) ... Removing readline-common (8.2-5) ... Removing ucf (3.0043+nmu1) ... Removing sensible-utils (0.0.24) ... Removing unzip (6.0-28) ... Removing x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xdg-utils (1.1.3-4.1) ... Removing zip (3.0-14) ... Removing libfontconfig1:amd64 (2.15.0-1.1) ... Removing fontconfig-config (2.15.0-1.1) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing libbrotli1:amd64 (1.1.0-2+b4) ... Removing libexpat1:amd64 (2.6.3-1) ... Removing libpng16-16t64:amd64 (1.6.44-2) ... Removing libx11-6:amd64 (2:1.8.7-1+b1) ... Removing libx11-data (2:1.8.7-1) ... Removing libxcb1:amd64 (1.17.0-2) ... Removing libxau6:amd64 (1:1.0.9-1+b1) ... Removing libxdmcp6:amd64 (1:1.1.2-3+b1) ... Processing triggers for libc-bin (2.40-2) ... 6m26.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lmodern', 'fonts-mathjax', 'gcc-11-base:amd64', 'hdf5-helpers', 'javascript-common', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libbibtex-parser-perl', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libio-string-perl', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-selectize.js', 'libjs-jquery-ui', 'libjs-json', 'libjs-lunr', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-twitter-bootstrap-datepicker', 'libkpathsea6:amd64', 'liblapack3:amd64', 'liblatex-tounicode-perl', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmpfi0:amd64', 'libmpfr6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpotrace0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libptexenc1:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsynctex2:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libteckit0:amd64', 'libtexlua53-5:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libzstd-dev:amd64', 'libzzip-0-13t64:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openssl', 'pandoc', 'pandoc-data', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocfilecache', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biocstyle', 'r-bioc-biocversion', 'r-bioc-biomart', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-dnacopy', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicfeatures', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-variantannotation', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-assertthat', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-bookdown', 'r-cran-brio', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-commonmark', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-dbi', 'r-cran-dbplyr', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-filelock', 'r-cran-fontawesome', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-highr', 'r-cran-hms', 'r-cran-htmltools', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-httr2', 'r-cran-isoband', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mclust', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-openssl', 'r-cran-pillar', 'r-cran-pkgbuild', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-progress', 'r-cran-promises', 'r-cran-ps', 'r-cran-purrr', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-rematch2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstudioapi', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-tinytex', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xml2', 'r-cran-xtable', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 't1utils', 'tex-common', 'texlive-base', 'texlive-bibtex-extra', 'texlive-binaries', 'texlive-latex-base', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-purecn'] 6m26.4s INFO: Running scripts post_remove 6m26.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_remove_exceptions'] 6m26.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_remove_exceptions'] 6m26.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lmodern', 'fonts-mathjax', 'gcc-11-base:amd64', 'hdf5-helpers', 'javascript-common', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libbibtex-parser-perl', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libio-string-perl', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-selectize.js', 'libjs-jquery-ui', 'libjs-json', 'libjs-lunr', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-twitter-bootstrap-datepicker', 'libkpathsea6:amd64', 'liblapack3:amd64', 'liblatex-tounicode-perl', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmpfi0:amd64', 'libmpfr6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpotrace0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libptexenc1:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsynctex2:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libteckit0:amd64', 'libtexlua53-5:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libzstd-dev:amd64', 'libzzip-0-13t64:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openssl', 'pandoc', 'pandoc-data', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocfilecache', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biocstyle', 'r-bioc-biocversion', 'r-bioc-biomart', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-dnacopy', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicfeatures', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-variantannotation', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-assertthat', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-bookdown', 'r-cran-brio', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-commonmark', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-dbi', 'r-cran-dbplyr', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-filelock', 'r-cran-fontawesome', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-highr', 'r-cran-hms', 'r-cran-htmltools', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-httr2', 'r-cran-isoband', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mclust', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-openssl', 'r-cran-pillar', 'r-cran-pkgbuild', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-progress', 'r-cran-promises', 'r-cran-ps', 'r-cran-purrr', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-rematch2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstudioapi', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-tinytex', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xml2', 'r-cran-xtable', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 't1utils', 'tex-common', 'texlive-base', 'texlive-bibtex-extra', 'texlive-binaries', 'texlive-latex-base', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 6m26.9s DUMP: (Reading database ... 9445 files and directories currently installed.) Purging configuration files for ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for fontconfig (2.15.0-1.1) ... Purging configuration files for fontconfig-config (2.15.0-1.1) ... dpkg: warning: while removing fontconfig-config, directory '/etc/fonts/conf.d' not empty so not removed Purging configuration files for fonts-dejavu-core (2.37-8) ... 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isn't installed Purging configuration files for libpaper1:amd64 (1.1.29+b1) ... dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpkgconf3 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libpotrace0 which isn't installed dpkg: warning: ignoring request to remove libpsl-dev which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libptexenc1 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-5) ... dpkg: warning: ignoring request to remove librtmp-dev which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: 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r-bioc-genomicranges which isn't installed dpkg: warning: ignoring request to remove r-bioc-iranges which isn't installed dpkg: warning: ignoring request to remove r-bioc-keggrest which isn't installed dpkg: warning: ignoring request to remove r-bioc-matrixgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5 which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5filters which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5lib which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhtslib which isn't installed dpkg: warning: ignoring request to remove r-bioc-rsamtools which isn't installed dpkg: warning: ignoring request to remove r-bioc-rtracklayer which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4arrays which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4vectors which isn't installed dpkg: warning: ignoring request to remove r-bioc-sparsearray which isn't installed dpkg: warning: ignoring request to remove r-bioc-summarizedexperiment which isn't installed dpkg: warning: ignoring request to remove r-bioc-ucsc.utils which isn't installed dpkg: warning: ignoring request to remove r-bioc-variantannotation which isn't installed dpkg: warning: ignoring request to remove r-bioc-xvector which isn't installed dpkg: warning: ignoring request to remove r-bioc-zlibbioc which isn't installed dpkg: warning: ignoring request to remove r-cran-abind which isn't installed dpkg: warning: ignoring request to remove r-cran-askpass which isn't installed dpkg: warning: ignoring request to remove r-cran-assertthat which isn't installed dpkg: warning: ignoring request to remove r-cran-base64enc which isn't installed dpkg: warning: ignoring request to remove r-cran-bh which isn't installed dpkg: warning: ignoring request to remove r-cran-biocmanager which isn't installed dpkg: warning: ignoring request to remove r-cran-bit which isn't installed dpkg: 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r-cran-farver which isn't installed dpkg: warning: ignoring request to remove r-cran-fastmap which isn't installed dpkg: warning: ignoring request to remove r-cran-filelock which isn't installed dpkg: warning: ignoring request to remove r-cran-fontawesome which isn't installed dpkg: warning: ignoring request to remove r-cran-formatr which isn't installed dpkg: warning: ignoring request to remove r-cran-fs which isn't installed dpkg: warning: ignoring request to remove r-cran-futile.logger which isn't installed dpkg: warning: ignoring request to remove r-cran-futile.options which isn't installed dpkg: warning: ignoring request to remove r-cran-generics which isn't installed dpkg: warning: ignoring request to remove r-cran-ggplot2 which isn't installed dpkg: warning: ignoring request to remove r-cran-glue which isn't installed dpkg: warning: ignoring request to remove r-cran-gridextra which isn't installed dpkg: warning: ignoring request to remove r-cran-gtable which isn't installed dpkg: warning: ignoring request to remove r-cran-highr which isn't installed dpkg: warning: ignoring request to remove r-cran-hms which isn't installed dpkg: warning: ignoring request to remove r-cran-htmltools which isn't installed dpkg: warning: ignoring request to remove r-cran-httpuv which isn't installed dpkg: warning: ignoring request to remove r-cran-httr which isn't installed dpkg: warning: ignoring request to remove r-cran-httr2 which isn't installed dpkg: warning: ignoring request to remove r-cran-isoband which isn't installed dpkg: warning: ignoring request to remove r-cran-jquerylib which isn't installed dpkg: warning: ignoring request to remove r-cran-jsonlite which isn't installed dpkg: warning: ignoring request to remove r-cran-knitr which isn't installed dpkg: warning: ignoring request to remove r-cran-labeling which isn't installed dpkg: warning: ignoring request to remove r-cran-lambda.r which isn't installed dpkg: warning: ignoring request to remove r-cran-later which isn't installed dpkg: warning: ignoring request to remove r-cran-lattice which isn't installed dpkg: warning: ignoring request to remove r-cran-lifecycle which isn't installed dpkg: warning: ignoring request to remove r-cran-littler which isn't installed dpkg: warning: ignoring request to remove r-cran-magrittr which isn't installed dpkg: warning: ignoring request to remove r-cran-mass which isn't installed dpkg: warning: ignoring request to remove r-cran-matrix which isn't installed dpkg: warning: ignoring request to remove r-cran-matrixstats which isn't installed dpkg: warning: ignoring request to remove r-cran-mclust 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-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-openssl 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-pkgbuild 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-png which isn't installed dpkg: warning: ignoring request to remove r-cran-praise which isn't installed dpkg: warning: ignoring request to remove r-cran-prettyunits which isn't installed dpkg: warning: ignoring request to remove r-cran-processx which isn't installed dpkg: warning: ignoring request to remove r-cran-progress which isn't installed dpkg: warning: ignoring request to remove r-cran-promises which isn't installed dpkg: warning: ignoring request to remove r-cran-ps which isn't installed dpkg: warning: ignoring request to remove r-cran-purrr which isn't installed dpkg: warning: ignoring request to remove r-cran-r6 which isn't installed dpkg: warning: ignoring request to remove r-cran-rappdirs which isn't installed dpkg: warning: ignoring request to remove r-cran-rcolorbrewer which isn't installed dpkg: warning: ignoring request to remove r-cran-rcpp which isn't installed dpkg: warning: ignoring request to remove r-cran-rcurl which isn't installed dpkg: warning: ignoring request to remove r-cran-rematch2 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-rjson which isn't installed dpkg: warning: ignoring request to remove r-cran-rlang which isn't installed dpkg: warning: ignoring request to remove r-cran-rmarkdown 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-rstudioapi 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-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-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-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-tinytex 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-vgam 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-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-xml2 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 Purging configuration files for readline-common (8.2-5) ... dpkg: warning: ignoring request to remove rpcsvc-proto which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed dpkg: warning: ignoring request to remove t1utils which isn't installed Purging configuration files for tex-common (6.18) ... Purging configuration files for texlive-base (2024.20240829-2) ... Purging configuration files for texlive-bibtex-extra (2024.20240829-1) ... dpkg: warning: ignoring request to remove texlive-binaries which isn't installed Purging configuration files for texlive-latex-base (2024.20240829-2) ... Purging configuration files for ucf (3.0043+nmu1) ... Purging configuration files for unzip (6.0-28) ... Purging configuration files for x11-common (1:7.7+23.1) ... dpkg: warning: while removing x11-common, directory '/etc/init.d' not empty so not removed dpkg: warning: ignoring request to remove xdg-utils which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed dpkg: warning: ignoring request to remove zlib1g-dev which isn't installed 6m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-glyphicons-halflings', 'fonts-lmodern', 'fonts-mathjax', 'gcc-11-base:amd64', 'hdf5-helpers', 'javascript-common', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libbibtex-parser-perl', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libio-string-perl', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-bootstrap', 'libjs-bootstrap4', 'libjs-d3', 'libjs-es5-shim', 'libjs-highlight.js', 'libjs-jquery', 'libjs-jquery-datatables', 'libjs-jquery-selectize.js', 'libjs-jquery-ui', 'libjs-json', 'libjs-lunr', 'libjs-mathjax', 'libjs-microplugin.js', 'libjs-modernizr', 'libjs-popper.js', 'libjs-prettify', 'libjs-sifter.js', 'libjs-twitter-bootstrap-datepicker', 'libkpathsea6:amd64', 'liblapack3:amd64', 'liblatex-tounicode-perl', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'liblua5.4-0:amd64', 'libmpfi0:amd64', 'libmpfr6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpotrace0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libptexenc1:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsynctex2:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libteckit0:amd64', 'libtexlua53-5:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libzstd-dev:amd64', 'libzzip-0-13t64:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'node-bootstrap-sass', 'node-html5shiv', 'node-normalize.css', 'openssl', 'pandoc', 'pandoc-data', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocfilecache', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biocstyle', 'r-bioc-biocversion', 'r-bioc-biomart', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-dnacopy', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicfeatures', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-variantannotation', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-assertthat', 'r-cran-base64enc', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bit', 'r-cran-bit64', 'r-cran-bitops', 'r-cran-blob', 'r-cran-bookdown', 'r-cran-brio', 'r-cran-bslib', 'r-cran-cachem', 'r-cran-callr', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-commonmark', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-dbi', 'r-cran-dbplyr', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-dplyr', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-filelock', 'r-cran-fontawesome', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-highr', 'r-cran-hms', 'r-cran-htmltools', 'r-cran-httpuv', 'r-cran-httr', 'r-cran-httr2', 'r-cran-isoband', 'r-cran-jquerylib', 'r-cran-jsonlite', 'r-cran-knitr', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-later', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mclust', 'r-cran-memoise', 'r-cran-mgcv', 'r-cran-mime', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-openssl', 'r-cran-pillar', 'r-cran-pkgbuild', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-pkgload', 'r-cran-plogr', 'r-cran-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-progress', 'r-cran-promises', 'r-cran-ps', 'r-cran-purrr', 'r-cran-r6', 'r-cran-rappdirs', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-rematch2', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-rmarkdown', 'r-cran-rprojroot', 'r-cran-rsqlite', 'r-cran-rstudioapi', 'r-cran-sass', 'r-cran-scales', 'r-cran-shiny', 'r-cran-snow', 'r-cran-sourcetools', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-tidyr', 'r-cran-tidyselect', 'r-cran-tinytex', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xfun', 'r-cran-xml', 'r-cran-xml2', 'r-cran-xtable', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 't1utils', 'tex-common', 'texlive-base', 'texlive-bibtex-extra', 'texlive-binaries', 'texlive-latex-base', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 6m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--purge', 'r-bioc-purecn'] 6m26.9s DUMP: dpkg: warning: ignoring request to remove r-bioc-purecn which isn't installed 6m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--purge', 'r-bioc-purecn'] 6m26.9s INFO: Running scripts post_purge 6m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_purge_exceptions'] 6m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_purge_exceptions'] 6m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--purge', '--pending'] 6m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--purge', '--pending'] 6m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--remove', '--pending'] 6m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg', '--remove', '--pending'] 6m27.0s INFO: Running scripts post_test 6m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_test_exceptions'] 6m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'tmp/scripts/post_test_exceptions'] 6m27.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 6m27.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 6m27.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg-divert', '--list'] 6m27.7s DUMP: diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64 diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64 diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra 6m27.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'dpkg-divert', '--list'] 6m27.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'clean'] 6m27.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpypu09s1d', 'apt-get', 'clean'] 6m27.9s DEBUG: Recording chroot state 6m28.5s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fonts-lmodern, fontconfig-config, fonts-dejavu-mono, fonts-dejavu-core /etc/fonts/conf.d/ owned by: fonts-lmodern, fontconfig-config, fonts-dejavu-mono, fonts-dejavu-core /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: fonts-font-awesome, fonts-glyphicons-halflings, fonts-mathjax, fonts-dejavu-mono, fonts-dejavu-core /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-font-awesome, fonts-glyphicons-halflings, fonts-dejavu-mono, fonts-dejavu-core /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/dejavu/ owned by: fonts-dejavu-mono, fonts-dejavu-core /usr/share/fonts/truetype/dejavu/.uuid not owned 6m29.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/shm'] 6m29.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/shm'] 6m29.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/console'] 6m29.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/console'] 6m29.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/ptmx'] 6m29.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/ptmx'] 6m29.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/pts'] 6m29.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/dev/pts'] 6m29.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/proc'] 6m29.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpypu09s1d/proc'] 6m29.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 6m29.4s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpypu09s1d'] 6m29.4s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpypu09s1d 6m29.4s INFO: PASS: Upgrading between Debian distributions. 6m29.4s INFO: PASS: All tests. 6m29.4s INFO: piuparts run ends. ret=0 End: 2024-10-04 11:19:28 GMT