Start: 2024-08-18 06:59:33 GMT [stable] Package: r-bioc-deseq2 Version: 1.30.1+dfsg-1 Installed-Size: 1956 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.4-1), r-api-4.0, r-api-bioc-3.12, r-bioc-s4vectors (>= 0.23.18), r-bioc-iranges, r-bioc-genomicranges, r-bioc-summarizedexperiment (>= 1.1.6), r-bioc-biocgenerics (>= 0.7.5), r-bioc-biobase, r-bioc-biocparallel, r-bioc-genefilter, r-cran-locfit, r-bioc-geneplotter, r-cran-ggplot2, r-cran-rcpp (>= 0.11.0), r-cran-rcpparmadillo, libblas3 | libblas.so.3, libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 9) Recommends: r-cran-testthat, r-bioc-glmgampoi, r-bioc-tximport Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-pheatmap, r-cran-rcolorbrewer, r-cran-readr, r-cran-pbapply, r-cran-biocmanager Description: R package for RNA-Seq Differential Expression Analysis Homepage: https://bioconductor.org/packages/DESeq2/ Description-md5: ae9e1d3c5793b8ca7b76c769e1059db8 Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-deseq2/r-bioc-deseq2_1.30.1+dfsg-1_amd64.deb Size: 1295832 MD5sum: c23ccfb4c23f71a2749e6f1107ea2ee0 SHA256: 36ad45ce04d0a6c09883a017a6c83b60c5c5fa8c1434e2621230b60efeead8f8 [testing] Package: r-bioc-deseq2 Version: 1.38.3+dfsg-1 Installed-Size: 1757 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.2.2.20221110-2), r-api-4.0, r-api-bioc-3.16, r-bioc-s4vectors (>= 0.23.18), r-bioc-iranges, r-bioc-genomicranges, r-bioc-summarizedexperiment (>= 1.1.6), r-bioc-biocgenerics (>= 0.7.5), r-bioc-biobase, r-bioc-biocparallel, r-cran-matrixstats, r-cran-locfit, r-bioc-geneplotter, r-cran-ggplot2, r-cran-rcpp (>= 0.11.0), r-cran-rcpparmadillo, libblas3 | libblas.so.3, libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 9) Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-pheatmap, r-cran-rcolorbrewer, r-bioc-tximport, r-bioc-tximeta, r-bioc-tximportdata, r-cran-readr, r-cran-pbapply, r-bioc-glmgampoi, r-cran-biocmanager Description: R package for RNA-Seq Differential Expression Analysis Homepage: https://bioconductor.org/packages/DESeq2/ Description-md5: ae9e1d3c5793b8ca7b76c769e1059db8 Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-deseq2/r-bioc-deseq2_1.38.3+dfsg-1_amd64.deb Size: 1288432 MD5sum: ec0f1e896be076c33de0b9da3347c1d2 SHA256: 9c687ae10131001b589e8f9e5e4dd852e1a8ca148277c296c0cfc195b269dc4c [sid] Package: r-bioc-deseq2 Version: 1.44.0+dfsg-1 Installed-Size: 1740 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-s4vectors (>= 0.42.1), r-bioc-iranges (>= 2.38.1), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-biocgenerics (>= 0.50.0), r-bioc-biobase (>= 2.64.0), r-bioc-biocparallel (>= 1.38.0), r-cran-matrixstats, r-cran-locfit, r-cran-ggplot2 (>= 3.4.0), r-cran-rcpp (>= 0.11.0), r-bioc-matrixgenerics (>= 1.16.0), r-cran-rcpparmadillo, libblas3 | libblas.so.3, libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 14) Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-pheatmap, r-cran-rcolorbrewer, r-bioc-tximport (>= 1.32.0), r-bioc-tximeta (>= 1.22.1), r-bioc-tximportdata (>= 1.32.0), r-cran-readr, r-cran-pbapply, r-bioc-glmgampoi (>= 1.16.0), r-cran-biocmanager Description: R package for RNA-Seq Differential Expression Analysis Homepage: https://bioconductor.org/packages/DESeq2/ Description-md5: ae9e1d3c5793b8ca7b76c769e1059db8 Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-deseq2/r-bioc-deseq2_1.44.0+dfsg-1_amd64.deb Size: 1283348 MD5sum: 3bf7fdfb163b8b519fda8814c981a7f5 SHA256: 501a347652789a9d1c13c34624897489d9d1f91c5e6ed82f17aa3e4de95c500c 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 stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt r-bioc-deseq2=1.44.0+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 1.4.2 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 stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt r-bioc-deseq2=1.44.0+dfsg-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-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/tmpdnpk9mu6 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpdnpk9mu6 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.6s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.6s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/proc'] 0m0.6s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/proc'] 0m0.6s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/pts'] 0m0.6s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/pts'] 0m0.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/ptmx'] 0m0.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/ptmx'] 0m0.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/console'] 0m0.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/console'] 0m0.6s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/shm'] 0m0.6s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/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/tmpdnpk9mu6/tmp/scripts/ 0m0.6s INFO: Running scripts post_chroot_unpack 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'update'] 0m1.7s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'update'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.3s DUMP: e0568dca630aa17b9cacee75afdb778e - 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.3s INFO: Running scripts post_setup 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_dummy_users'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_dummy_users'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_forbid_home'] 0m3.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_forbid_home'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.7s 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' 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_minimize'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_minimize'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_zz_backports'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_setup_zz_backports'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.8s 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+deb11u10 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+deb11u10 install ok installed libc6:amd64 libc6 2.31-13+deb11u10 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+deb11u4 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+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 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 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.8s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat 0m4.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 0m4.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 0m4.6s INFO: Running scripts is_testable 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/is_testable_uninstallable'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/is_testable_uninstallable'] 0m4.6s INFO: Running scripts pre_test 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_test_exceptions'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_test_exceptions'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_test_root_password'] 0m4.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_test_root_password'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-deseq2'] 0m4.9s DUMP: Package: r-bioc-deseq2 Version: 1.30.1+dfsg-1 Installed-Size: 1956 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.4-1), r-api-4.0, r-api-bioc-3.12, r-bioc-s4vectors (>= 0.23.18), r-bioc-iranges, r-bioc-genomicranges, r-bioc-summarizedexperiment (>= 1.1.6), r-bioc-biocgenerics (>= 0.7.5), r-bioc-biobase, r-bioc-biocparallel, r-bioc-genefilter, r-cran-locfit, r-bioc-geneplotter, r-cran-ggplot2, r-cran-rcpp (>= 0.11.0), r-cran-rcpparmadillo, libblas3 | libblas.so.3, libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 9) Recommends: r-cran-testthat, r-bioc-glmgampoi, r-bioc-tximport Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-pheatmap, r-cran-rcolorbrewer, r-cran-readr, r-cran-pbapply, r-cran-biocmanager Description-en: R package for RNA-Seq Differential Expression Analysis Differential gene expression analysis based on the negative binomial distribution. Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution. Description-md5: ae9e1d3c5793b8ca7b76c769e1059db8 Homepage: https://bioconductor.org/packages/DESeq2/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-deseq2/r-bioc-deseq2_1.30.1+dfsg-1_amd64.deb Size: 1295832 MD5sum: c23ccfb4c23f71a2749e6f1107ea2ee0 SHA256: 36ad45ce04d0a6c09883a017a6c83b60c5c5fa8c1434e2621230b60efeead8f8 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-deseq2'] 0m4.9s INFO: apt-cache knows about the following packages: r-bioc-deseq2 0m4.9s INFO: Running scripts pre_install 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 0m5.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.10,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 0m5.1s DUMP: r-bioc-deseq2: Installed: (none) Candidate: 1.30.1+dfsg-1 Version table: 1.30.1+dfsg-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2'] 0m45.4s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core libasan6 libatomic1 libblas3 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 libice6 libicu67 libitm1 libjbig0 libjpeg62-turbo 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 libssh2-1 libstdc++-10-dev 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 openssl r-base-core r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-delayedarray r-bioc-genefilter r-bioc-geneplotter r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-s4vectors r-bioc-summarizedexperiment 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-dbi r-cran-desc r-cran-diffobj r-cran-digest 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-ggplot2 r-cran-glue r-cran-gtable 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-locfit 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-ps r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo 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-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml r-cran-xtable 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 libstdc++-10-doc tcl8.6 tk8.6 elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-bioc-biostrings r-bioc-go.db r-bioc-org.hs.eg.db r-cran-runit r-bioc-graph r-bioc-biocstyle r-cran-knitr r-bioc-all r-bioc-rsamtools r-bioc-affy r-cran-foreach r-cran-bbmisc r-bioc-variantannotation r-bioc-genomicalignments r-bioc-shortread r-cran-codetools r-cran-data.table r-bioc-hdf5array r-bioc-delayedmatrixstats r-cran-rmarkdown r-cran-pheatmap r-cran-readr r-cran-pbapply r-cran-biocmanager r-bioc-genomicfeatures r-bioc-bsgenome r-bioc-rtracklayer r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq r-bioc-edger r-bioc-sparsematrixstats r-bioc-rhdf5 r-cran-covr 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-dplyr r-cran-png r-cran-jpeg r-cran-viridis r-cran-rmysql 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-r.utils r-cran-forcats r-cran-stringr r-cran-httpuv r-cran-xml2 r-cran-magick r-cran-plyr r-cran-getopt r-cran-interp r-cran-gam r-cran-base64enc r-cran-cpp11 r-cran-inline r-cran-gh r-cran-hms r-cran-rvest r-cran-dichromat r-cran-rmpi r-cran-rsprng r-cran-rlecuyer r-cran-mockery r-cran-usethis r-cran-bench r-cran-formattable r-cran-htmltools r-cran-purrr r-cran-tidyr r-cran-zeallot r-cran-plm r-cran-zoo readline-doc Recommended packages: manpages manpages-dev libc-devtools libglib2.0-data shared-mime-info xdg-user-dirs 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-bioc-rsamtools r-cran-batchtools r-cran-rmpi r-bioc-glmgampoi r-bioc-tximport r-cran-class r-cran-knitr r-cran-cliapp r-cran-mockery r-cran-httpuv r-cran-webutils r-cran-testit r-cran-codetools r-cran-sp r-cran-mapproj r-cran-hexbin r-cran-vdiffr r-cran-quantreg r-cran-xml2 r-cran-sodium r-cran-lubridate r-cran-rmarkdown r-cran-mockr r-cran-dbitest r-cran-hms r-cran-data.table r-cran-dplyr r-cran-generics 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 libasan6 libatomic1 libblas3 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 libice6 libicu67 libitm1 libjbig0 libjpeg62-turbo 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 libssh2-1 libstdc++-10-dev 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 openssl r-base-core r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-delayedarray r-bioc-deseq2 r-bioc-genefilter r-bioc-geneplotter r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-s4vectors r-bioc-summarizedexperiment 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-dbi r-cran-desc r-cran-diffobj r-cran-digest 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-ggplot2 r-cran-glue r-cran-gtable 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-locfit 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-ps r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo 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-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml r-cran-xtable readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 188 newly installed, 0 to remove and 0 not upgraded. Need to get 169 MB of archives. After this operation, 496 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 openssl amd64 1.1.1w-0+deb11u1 [859 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 ca-certificates all 20210119 [158 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1+deb11u1 [418 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 fonts-dejavu-core 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libxcb-shm0 amd64 1.14-3 [101 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 libcairo2 amd64 1.16.0-5 [694 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1+deb11u1 [69.1 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1+deb11u1 [106 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3+deb11u1 [232 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1+deb11u1 [77.2 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:52 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:53 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2+deb11u1 [156 kB] Get:54 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u12 [347 kB] Get:55 http://deb.debian.org/debian bullseye/main amd64 libdatrie1 amd64 0.2.13-1 [42.7 kB] Get:56 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get:57 http://deb.debian.org/debian bullseye/main amd64 libfribidi0 amd64 1.0.8-2+deb11u1 [64.9 kB] Get:58 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:59 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1+deb11u4 [1377 kB] Get:60 http://deb.debian.org/debian bullseye/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:61 http://deb.debian.org/debian bullseye/main amd64 libharfbuzz0b amd64 2.7.4-1 [1471 kB] Get:62 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get:63 http://deb.debian.org/debian bullseye/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:64 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get:65 http://deb.debian.org/debian bullseye/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:66 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get:67 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get:68 http://deb.debian.org/debian bullseye/main amd64 libthai-data all 0.1.28-3 [170 kB] Get:69 http://deb.debian.org/debian bullseye/main amd64 libthai0 amd64 0.1.28-3 [54.2 kB] Get:70 http://deb.debian.org/debian bullseye/main amd64 libpango-1.0-0 amd64 1.46.2-3 [191 kB] Get:71 http://deb.debian.org/debian bullseye/main amd64 libpangoft2-1.0-0 amd64 1.46.2-3 [62.2 kB] Get:72 http://deb.debian.org/debian bullseye/main amd64 libpangocairo-1.0-0 amd64 1.46.2-3 [50.6 kB] Get:73 http://deb.debian.org/debian bullseye/main amd64 libpaper1 amd64 1.1.28+b1 [21.6 kB] Get:74 http://deb.debian.org/debian bullseye/main amd64 libpaper-utils amd64 1.1.28+b1 [18.3 kB] Get:75 http://deb.debian.org/debian bullseye/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:76 http://deb.debian.org/debian bullseye/main amd64 libtcl8.6 amd64 8.6.11+dfsg-1 [1018 kB] Get:77 http://deb.debian.org/debian bullseye/main amd64 libwebp6 amd64 0.6.1-2.1+deb11u2 [259 kB] Get:78 http://deb.debian.org/debian bullseye/main amd64 libtiff5 amd64 4.2.0-1+deb11u5 [290 kB] Get:79 http://deb.debian.org/debian bullseye/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:80 http://deb.debian.org/debian bullseye/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:81 http://deb.debian.org/debian bullseye/main amd64 libtk8.6 amd64 8.6.11-2 [780 kB] Get:82 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7+deb11u4 [693 kB] Get:83 http://deb.debian.org/debian bullseye/main amd64 libxt6 amd64 1:1.2.0-1 [189 kB] Get:84 http://deb.debian.org/debian bullseye/main amd64 zip amd64 3.0-12 [232 kB] Get:85 http://deb.debian.org/debian bullseye/main amd64 unzip amd64 6.0-26+deb11u1 [172 kB] Get:86 http://deb.debian.org/debian bullseye/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:87 http://deb.debian.org/debian bullseye/main amd64 r-base-core amd64 4.0.4-1 [25.1 MB] Get:88 http://deb.debian.org/debian bullseye/main amd64 r-cran-littler amd64 0.3.12-1 [95.9 kB] Get:89 http://deb.debian.org/debian bullseye/main amd64 littler all 0.3.12-1 [15.6 kB] Get:90 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocgenerics all 0.36.0-1 [648 kB] Get:91 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biobase amd64 2.50.0-1 [2229 kB] Get:92 http://deb.debian.org/debian bullseye/main amd64 r-bioc-s4vectors amd64 0.28.1-1 [2027 kB] Get:93 http://deb.debian.org/debian bullseye/main amd64 r-bioc-iranges amd64 2.24.1-1 [2202 kB] Get:94 http://deb.debian.org/debian bullseye/main amd64 r-cran-dbi all 1.1.1-1 [619 kB] Get:95 http://deb.debian.org/debian bullseye/main amd64 r-cran-bit amd64 4.0.4+dfsg-1 [422 kB] Get:96 http://deb.debian.org/debian bullseye/main amd64 r-cran-bit64 amd64 4.0.5-1 [463 kB] Get:97 http://deb.debian.org/debian bullseye/main amd64 r-cran-rlang amd64 0.4.10-1 [1176 kB] Get:98 http://deb.debian.org/debian bullseye/main amd64 r-cran-ellipsis amd64 0.3.1-1 [31.7 kB] Get:99 http://deb.debian.org/debian bullseye/main amd64 r-cran-digest amd64 0.6.27-1 [192 kB] Get:100 http://deb.debian.org/debian bullseye/main amd64 r-cran-glue amd64 1.4.2-1 [138 kB] Get:101 http://deb.debian.org/debian bullseye/main amd64 r-cran-vctrs amd64 0.3.6-1 [1107 kB] Get:102 http://deb.debian.org/debian bullseye/main amd64 r-cran-blob all 1.2.1-2 [49.1 kB] Get:103 http://deb.debian.org/debian bullseye/main amd64 r-cran-fastmap amd64 1.1.0-1 [64.7 kB] Get:104 http://deb.debian.org/debian bullseye/main amd64 r-cran-cachem amd64 1.0.3-1 [61.4 kB] Get:105 http://deb.debian.org/debian bullseye/main amd64 r-cran-memoise all 2.0.0-1 [52.9 kB] Get:106 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgconfig all 2.0.3-2 [19.6 kB] Get:107 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgkitten all 0.2.1-1 [26.5 kB] Get:108 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcpp amd64 1.0.6-1 [2035 kB] Get:109 http://deb.debian.org/debian bullseye/main amd64 r-cran-bh all 1.74.0-1 [5196 B] Get:110 http://deb.debian.org/debian bullseye/main amd64 r-cran-plogr all 0.2.0-3 [14.9 kB] Get:111 http://deb.debian.org/debian bullseye/main amd64 r-cran-rsqlite amd64 2.2.3-1 [1035 kB] Get:112 http://deb.debian.org/debian bullseye/main amd64 r-bioc-annotationdbi all 1.52.0-1 [4707 kB] Get:113 http://deb.debian.org/debian bullseye/main amd64 r-cran-xml amd64 3.99-0.5-1 [1722 kB] Get:114 http://deb.debian.org/debian bullseye/main amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] Get:115 http://deb.debian.org/debian bullseye/main amd64 r-cran-curl amd64 4.3+dfsg-1+b1 [151 kB] Get:116 http://deb.debian.org/debian bullseye/main amd64 r-cran-jsonlite amd64 1.7.2+dfsg-1 [447 kB] Get:117 http://deb.debian.org/debian bullseye/main amd64 r-cran-mime amd64 0.9-1+b1 [35.5 kB] Get:118 http://deb.debian.org/debian bullseye/main amd64 r-cran-sys amd64 3.4-1 [42.9 kB] Get:119 http://deb.debian.org/debian bullseye/main amd64 r-cran-askpass amd64 1.1-2 [22.2 kB] Get:120 http://deb.debian.org/debian bullseye/main amd64 r-cran-openssl amd64 1.4.3+dfsg-2 [376 kB] Get:121 http://deb.debian.org/debian bullseye/main amd64 r-cran-r6 all 2.5.0-1 [104 kB] Get:122 http://deb.debian.org/debian bullseye/main amd64 r-cran-httr all 1.4.2-1 [478 kB] Get:123 http://deb.debian.org/debian bullseye/main amd64 r-bioc-annotate all 1.68.0+dfsg-1 [2103 kB] Get:124 http://deb.debian.org/debian bullseye/main amd64 r-cran-formatr all 1.7-2 [151 kB] Get:125 http://deb.debian.org/debian bullseye/main amd64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get:126 http://deb.debian.org/debian bullseye/main amd64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get:127 http://deb.debian.org/debian bullseye/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get:128 http://deb.debian.org/debian bullseye/main amd64 r-cran-snow all 1:0.4.3-2 [109 kB] Get:129 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocparallel amd64 1.24.1-1 [1143 kB] Get:130 http://deb.debian.org/debian bullseye/main amd64 r-cran-lattice amd64 0.20-41-1+b1 [1164 kB] Get:131 http://deb.debian.org/debian bullseye/main amd64 r-cran-matrix amd64 1.3-2-1 [3604 kB] Get:132 http://deb.debian.org/debian bullseye/main amd64 r-cran-matrixstats amd64 0.58.0-3 [664 kB] Get:133 http://deb.debian.org/debian bullseye/main amd64 r-bioc-matrixgenerics all 1.2.1-4 [288 kB] Get:134 http://deb.debian.org/debian bullseye/main amd64 r-bioc-delayedarray amd64 0.16.1+dfsg-1 [1798 kB] Get:135 http://deb.debian.org/debian bullseye/main amd64 r-cran-bitops amd64 1.0-6-5 [23.6 kB] Get:136 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcurl amd64 1.98-1.2-1+b1 [787 kB] Get:137 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomeinfodbdata all 1.2.4-1 [10.7 MB] Get:138 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomeinfodb all 1.26.2-2 [3905 kB] Get:139 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2+deb11u2 [191 kB] Get:140 http://deb.debian.org/debian bullseye/main amd64 r-bioc-zlibbioc all 1.36.0+dfsg-1 [8824 B] Get:141 http://deb.debian.org/debian bullseye/main amd64 r-bioc-xvector amd64 0.30.0-1 [620 kB] Get:142 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomicranges amd64 1.42.0+dfsg-1 [1856 kB] Get:143 http://deb.debian.org/debian bullseye/main amd64 r-bioc-summarizedexperiment all 1.20.0+dfsg-1 [1955 kB] Get:144 http://deb.debian.org/debian bullseye/main amd64 r-cran-survival amd64 3.2-7-1 [7631 kB] Get:145 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genefilter amd64 1.72.1-1 [1154 kB] Get:146 http://deb.debian.org/debian bullseye/main amd64 r-cran-locfit amd64 1.5-9.4-2+b1 [508 kB] Get:147 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcolorbrewer all 1.1-2-3 [54.4 kB] Get:148 http://deb.debian.org/debian bullseye/main amd64 r-bioc-geneplotter all 1.68.0-1 [1551 kB] Get:149 http://deb.debian.org/debian bullseye/main amd64 r-cran-gtable all 0.3.0+dfsg-2 [163 kB] Get:150 http://deb.debian.org/debian bullseye/main amd64 r-cran-brio amd64 1.1.1-1 [31.7 kB] Get:151 http://deb.debian.org/debian bullseye/main amd64 r-cran-ps amd64 1.5.0-1 [277 kB] Get:152 http://deb.debian.org/debian bullseye/main amd64 r-cran-processx amd64 3.4.5-1 [295 kB] Get:153 http://deb.debian.org/debian bullseye/main amd64 r-cran-callr all 3.5.1-1 [386 kB] Get:154 http://deb.debian.org/debian bullseye/main amd64 r-cran-assertthat all 0.2.1-2 [56.5 kB] Get:155 http://deb.debian.org/debian bullseye/main amd64 r-cran-cli all 2.3.0-1 [480 kB] Get:156 http://deb.debian.org/debian bullseye/main amd64 r-cran-crayon all 1.4.0-1 [143 kB] Get:157 http://deb.debian.org/debian bullseye/main amd64 r-cran-rprojroot all 2.0.2-1 [114 kB] Get:158 http://deb.debian.org/debian bullseye/main amd64 r-cran-desc all 1.2.0-3 [301 kB] Get:159 http://deb.debian.org/debian bullseye/main amd64 r-cran-evaluate all 0.14-2 [81.1 kB] Get:160 http://deb.debian.org/debian bullseye/main amd64 r-cran-lifecycle all 0.2.0-2 [93.2 kB] Get:161 http://deb.debian.org/debian bullseye/main amd64 r-cran-magrittr amd64 2.0.1-1 [198 kB] Get:162 http://deb.debian.org/debian bullseye/main amd64 r-cran-prettyunits all 1.1.1-2 [39.1 kB] Get:163 http://deb.debian.org/debian bullseye/main amd64 r-cran-withr all 2.4.1-1 [210 kB] Get:164 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgbuild all 1.2.0-1 [146 kB] Get:165 http://deb.debian.org/debian bullseye/main amd64 r-cran-rstudioapi all 0.13-1 [262 kB] Get:166 http://deb.debian.org/debian bullseye/main amd64 r-cran-pkgload amd64 1.1.0-1 [168 kB] Get:167 http://deb.debian.org/debian bullseye/main amd64 r-cran-praise all 1.0.0-4 [20.1 kB] Get:168 http://deb.debian.org/debian bullseye/main amd64 r-cran-diffobj amd64 0.3.2-1 [1069 kB] Get:169 http://deb.debian.org/debian bullseye/main amd64 r-cran-fansi amd64 0.4.2-1 [345 kB] Get:170 http://deb.debian.org/debian bullseye/main amd64 r-cran-utf8 amd64 1.1.4-2 [131 kB] Get:171 http://deb.debian.org/debian bullseye/main amd64 r-cran-pillar all 1.4.7-1 [227 kB] Get:172 http://deb.debian.org/debian bullseye/main amd64 r-cran-tibble amd64 3.0.6+dfsg-1 [416 kB] Get:173 http://deb.debian.org/debian bullseye/main amd64 r-cran-rematch2 all 2.1.2-2 [46.3 kB] Get:174 http://deb.debian.org/debian bullseye/main amd64 r-cran-waldo all 0.2.3-2 [79.3 kB] Get:175 http://deb.debian.org/debian bullseye/main amd64 r-cran-testthat amd64 3.0.1-1 [1451 kB] Get:176 http://deb.debian.org/debian bullseye/main amd64 r-cran-isoband amd64 0.2.3-2 [2085 kB] Get:177 http://deb.debian.org/debian bullseye/main amd64 r-cran-mass amd64 7.3-53.1-1 [1115 kB] Get:178 http://deb.debian.org/debian bullseye/main amd64 r-cran-nlme amd64 3.1.152-1 [2241 kB] Get:179 http://deb.debian.org/debian bullseye/main amd64 r-cran-mgcv amd64 1.8-34-1 [2998 kB] Get:180 http://deb.debian.org/debian bullseye/main amd64 r-cran-farver amd64 2.0.3-1+b1 [1393 kB] Get:181 http://deb.debian.org/debian bullseye/main amd64 r-cran-labeling all 0.4.2-1 [62.7 kB] Get:182 http://deb.debian.org/debian bullseye/main amd64 r-cran-colorspace amd64 2.0-0+dfsg-1 [1684 kB] Get:183 http://deb.debian.org/debian bullseye/main amd64 r-cran-munsell all 0.5.0-2 [236 kB] Get:184 http://deb.debian.org/debian bullseye/main amd64 r-cran-viridislite all 0.3.0-4 [59.2 kB] Get:185 http://deb.debian.org/debian bullseye/main amd64 r-cran-scales all 1.1.1-1 [557 kB] Get:186 http://deb.debian.org/debian bullseye/main amd64 r-cran-ggplot2 all 3.3.3+dfsg-1 [3158 kB] Get:187 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcpparmadillo amd64 0.10.2.1.0-1 [1149 kB] Get:188 http://deb.debian.org/debian bullseye/main amd64 r-bioc-deseq2 amd64 1.30.1+dfsg-1 [1296 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 169 MB in 10s (17.6 MB/s) Selecting previously unselected package readline-common. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6674 files and directories currently installed.) Preparing to unpack .../000-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../001-libreadline8_8.1-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package openssl. Preparing to unpack .../003-openssl_1.1.1w-0+deb11u1_amd64.deb ... Unpacking openssl (1.1.1w-0+deb11u1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20210119_all.deb ... Unpacking ca-certificates (20210119) ... Selecting previously unselected package ucf. Preparing to unpack .../005-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../006-libexpat1_2.2.10-2+deb11u5_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2+deb11u5) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../007-libbrotli1_1.0.9-2+b2_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b2) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../008-libpng16-16_1.6.37-3_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.37-3) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../009-libfreetype6_2.10.4+dfsg-1+deb11u1_amd64.deb ... Unpacking libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../010-fonts-dejavu-core_2.37-2_all.deb ... Unpacking fonts-dejavu-core (2.37-2) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../011-fontconfig-config_2.13.1-4.2_all.deb ... Unpacking fontconfig-config (2.13.1-4.2) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../012-libfontconfig1_2.13.1-4.2_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.1-4.2) ... Selecting previously unselected package fontconfig. Preparing to unpack .../013-fontconfig_2.13.1-4.2_amd64.deb ... Unpacking fontconfig (2.13.1-4.2) ... Selecting previously unselected package libasan6:amd64. 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Setting up r-cran-prettyunits (1.1.1-2) ... Setting up r-cran-fansi (0.4.2-1) ... Setting up r-cran-mass (7.3-53.1-1) ... Setting up r-cran-snow (1:0.4.3-2) ... Setting up r-cran-glue (1.4.2-1) ... Setting up r-cran-bit (4.0.4+dfsg-1) ... Setting up r-cran-xtable (1:1.8-4-2) ... Setting up r-cran-cli (2.3.0-1) ... Setting up r-cran-lifecycle (0.2.0-2) ... Setting up r-cran-bitops (1.0-6-5) ... Setting up r-cran-rprojroot (2.0.2-1) ... Setting up r-cran-bit64 (4.0.5-1) ... Setting up r-bioc-zlibbioc (1.36.0+dfsg-1) ... Setting up r-cran-askpass (1.1-2) ... Setting up r-cran-fastmap (1.1.0-1) ... Setting up r-bioc-biobase (2.50.0-1) ... Setting up r-cran-jsonlite (1.7.2+dfsg-1) ... Setting up r-cran-rstudioapi (0.13-1) ... Setting up r-cran-pkgconfig (2.0.3-2) ... Setting up r-cran-utf8 (1.1.4-2) ... Setting up r-cran-colorspace (2.0-0+dfsg-1) ... Setting up r-cran-rcolorbrewer (1.1-2-3) ... Setting up r-bioc-s4vectors (0.28.1-1) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up r-cran-matrix (1.3-2-1) ... Setting up r-cran-mgcv (1.8-34-1) ... Setting up r-cran-cachem (1.0.3-1) ... Setting up r-cran-rcpparmadillo (0.10.2.1.0-1) ... Setting up r-bioc-iranges (2.24.1-1) ... Setting up r-cran-rcurl (1.98-1.2-1+b1) ... Setting up r-bioc-delayedarray (0.16.1+dfsg-1) ... Setting up r-cran-ellipsis (0.3.1-1) ... Setting up r-cran-openssl (1.4.3+dfsg-2) ... Setting up r-bioc-biocparallel (1.24.1-1) ... Setting up r-cran-callr (3.5.1-1) ... Setting up r-cran-desc (1.2.0-3) ... Setting up r-cran-munsell (0.5.0-2) ... Setting up r-cran-survival (3.2-7-1) ... 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-cran-tibble (3.0.6+dfsg-1) ... Setting up r-cran-blob (1.2.1-2) ... Setting up r-cran-rsqlite (2.2.3-1) ... Setting up r-bioc-summarizedexperiment (1.20.0+dfsg-1) ... Setting up r-bioc-annotationdbi (1.52.0-1) ... Setting up r-cran-rematch2 (2.1.2-2) ... Setting up r-bioc-annotate (1.68.0+dfsg-1) ... Setting up r-cran-waldo (0.2.3-2) ... Setting up r-bioc-genefilter (1.72.1-1) ... Setting up r-bioc-geneplotter (1.68.0-1) ... Setting up r-cran-testthat (3.0.1-1) ... Setting up r-cran-isoband (0.2.3-2) ... Setting up r-cran-ggplot2 (3.3.3+dfsg-1) ... Setting up r-bioc-deseq2 (1.30.1+dfsg-1) ... Processing triggers for libc-bin (2.31-13+deb11u10) ... 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. 0m45.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2'] 0m45.4s INFO: Running scripts post_install 0m45.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 0m45.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 0m45.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 0m46.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 0m46.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpdnpk9mu6 to testing 0m46.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m46.6s INFO: Running scripts pre_distupgrade 0m46.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m46.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m46.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_exceptions'] 0m46.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_exceptions'] 0m46.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m46.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m46.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'update'] 0m50.1s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [151 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8788 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [6109 kB] Fetched 15.0 MB in 2s (6279 kB/s) Reading package lists... 0m50.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'update'] 0m50.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-yf', 'dist-upgrade'] 1m47.9s 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 r-cran-assertthat 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 libffi8 libfile-find-rule-perl libgcc-12-dev libgdbm-compat4 libgdbm6 libicu72 libldap-2.5-0 liblerc4 libnumber-compare-perl libperl5.36 libsemanage2 libsepol2 libssl3 libstdc++-12-dev libtext-glob-perl libtiff6 libtsan2 libuv1 libwebp7 perl perl-modules-5.36 r-bioc-biostrings r-bioc-keggrest r-cran-codetools r-cran-cpp11 r-cran-fs r-cran-png 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 hostname init-system-helpers libacl1 libapt-pkg6.0 libasan6 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 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 libhogweed6 libidn2-0 libitm1 libjbig0 libjpeg62-turbo 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 libss2 libssh2-1 libstdc++6 libsystemd0 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 openssl passwd perl-base r-base-core r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-delayedarray r-bioc-deseq2 r-bioc-genefilter r-bioc-geneplotter r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-s4vectors r-bioc-summarizedexperiment 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-dbi r-cran-desc r-cran-diffobj r-cran-digest r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-formatr r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-httr r-cran-isoband r-cran-jsonlite r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit 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-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcurl r-cran-rlang r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-scales r-cran-snow r-cran-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml readline-common sed sensible-utils sysvinit-utils tar tzdata ucf unzip util-linux x11-common zip zlib1g zlib1g-dev 247 upgraded, 34 newly installed, 1 to remove and 0 not upgraded. Need to get 235 MB of archives. After this operation, 170 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 base-files amd64 12.4+deb12u6 [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+deb12u7 [1899 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libc-dev-bin amd64 2.36-9+deb12u7 [45.8 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+deb12u7 [2758 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libc-bin amd64 2.36-9+deb12u7 [607 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 6.1.94-1 [1994 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 252.26-1~deb12u2 [332 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libudev1 amd64 252.26-1~deb12u2 [108 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 3.0.13-1~deb12u1 [2022 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.13-1~deb12u1 [1418 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 libasan6 amd64 11.3.0-12 [2050 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 libasan8 amd64 12.2.0-14 [2195 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 libatomic1 amd64 12.2.0-14 [9328 B] Get:122 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 libitm1 amd64 12.2.0-14 [26.1 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 liblsan0 amd64 12.2.0-14 [969 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 libtsan2 amd64 12.2.0-14 [2196 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 libubsan1 amd64 12.2.0-14 [883 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libgcc-12-dev amd64 12.2.0-14 [2437 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libstdc++-12-dev amd64 12.2.0-14 [2046 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21 [9508 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:140 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 libcom-err2 amd64 1.47.0-2 [19.8 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:148 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:153 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:154 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-10+deb12u6 [390 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2+deb12u3 [1400 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:163 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get:167 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get:172 http://deb.debian.org/debian bookworm/main amd64 libpaper-utils amd64 1.1.29 [8868 B] Get:173 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:174 http://deb.debian.org/debian bookworm/main amd64 libss2 amd64 1.47.0-2 [24.5 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [1035 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:181 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 libtk8.6 amd64 8.6.13-2 [781 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 libtsan0 amd64 11.3.0-12 [2016 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 libuv1 amd64 1.44.2-1+deb12u1 [136 kB] Get:185 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get:186 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1.1 [186 kB] Get:187 http://deb.debian.org/debian bookworm/main amd64 zip amd64 3.0-13 [230 kB] Get:188 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-28 [166 kB] Get:189 http://deb.debian.org/debian bookworm/main amd64 r-base-core amd64 4.2.2.20221110-2 [26.0 MB] Get:190 http://deb.debian.org/debian bookworm/main amd64 r-cran-littler amd64 0.3.17-1 [96.3 kB] Get:191 http://deb.debian.org/debian bookworm/main amd64 littler all 0.3.17-1 [14.4 kB] Get:192 http://deb.debian.org/debian bookworm/main amd64 r-bioc-zlibbioc all 1.44.0+dfsg-1 [9200 B] Get:193 http://deb.debian.org/debian bookworm/main amd64 r-bioc-s4vectors amd64 0.36.1-1 [2026 kB] Get:194 http://deb.debian.org/debian bookworm/main amd64 r-bioc-iranges amd64 2.32.0-1 [2222 kB] Get:195 http://deb.debian.org/debian bookworm/main amd64 r-bioc-xvector amd64 0.38.0-1 [618 kB] Get:196 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrixstats amd64 0.63.0-1 [470 kB] Get:197 http://deb.debian.org/debian bookworm/main amd64 r-bioc-matrixgenerics all 1.10.0-1 [302 kB] Get:198 http://deb.debian.org/debian bookworm/main amd64 r-cran-bitops amd64 1.0-7-1 [30.2 kB] Get:199 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcurl amd64 1.98-1.10+dfsg-1 [783 kB] Get:200 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodbdata all 1.2.9-1 [11.7 MB] Get:201 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodb all 1.34.9-1 [3938 kB] Get:202 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicranges amd64 1.50.2+dfsg-1 [1796 kB] Get:203 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biobase amd64 2.58.0-2 [2112 kB] Get:204 http://deb.debian.org/debian bookworm/main amd64 r-cran-lattice amd64 0.20-45-3 [1177 kB] Get:205 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrix amd64 1.5-3-1 [3822 kB] Get:206 http://deb.debian.org/debian bookworm/main amd64 r-bioc-delayedarray amd64 0.24.0+dfsg-1 [1937 kB] Get:207 http://deb.debian.org/debian bookworm/main amd64 r-bioc-summarizedexperiment all 1.28.0+dfsg-1 [2018 kB] Get:208 http://deb.debian.org/debian bookworm/main amd64 r-cran-dbi all 1.1.3-1 [687 kB] Get:209 http://deb.debian.org/debian bookworm/main amd64 r-cran-rlang amd64 1.0.6-1 [1618 kB] Get:210 http://deb.debian.org/debian bookworm/main amd64 r-cran-cli amd64 3.6.0-1 [1287 kB] Get:211 http://deb.debian.org/debian bookworm/main amd64 r-cran-glue amd64 1.6.2-1 [152 kB] Get:212 http://deb.debian.org/debian bookworm/main amd64 r-cran-lifecycle all 1.0.3+dfsg-1 [109 kB] Get:213 http://deb.debian.org/debian bookworm/main amd64 r-cran-vctrs amd64 0.5.2-1 [1371 kB] Get:214 http://deb.debian.org/debian bookworm/main amd64 r-cran-blob all 1.2.3-1 [49.5 kB] Get:215 http://deb.debian.org/debian bookworm/main amd64 r-cran-fastmap amd64 1.1.1-1 [68.9 kB] Get:216 http://deb.debian.org/debian bookworm/main amd64 r-cran-cachem amd64 1.0.7-1 [71.6 kB] Get:217 http://deb.debian.org/debian bookworm/main amd64 r-cran-memoise all 2.0.1-1 [53.8 kB] Get:218 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgkitten all 0.2.2-2 [27.0 kB] Get:219 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpp amd64 1.0.10-1 [2059 kB] Get:220 http://deb.debian.org/debian bookworm/main amd64 r-cran-rsqlite amd64 2.2.20-1 [1123 kB] Get:221 http://deb.debian.org/debian bookworm/main amd64 r-cran-curl amd64 5.0.0+dfsg-1 [172 kB] Get:222 http://deb.debian.org/debian bookworm/main amd64 r-cran-jsonlite amd64 1.8.4+dfsg-1 [442 kB] Get:223 http://deb.debian.org/debian bookworm/main amd64 r-cran-mime amd64 0.12-1+b1 [36.0 kB] Get:224 http://deb.debian.org/debian bookworm/main amd64 r-cran-openssl amd64 2.0.5+dfsg-1 [391 kB] Get:225 http://deb.debian.org/debian bookworm/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get:226 http://deb.debian.org/debian bookworm/main amd64 r-cran-httr all 1.4.5+dfsg-1 [465 kB] Get:227 http://deb.debian.org/debian bookworm/main amd64 r-cran-png amd64 0.1-8-1 [41.1 kB] Get:228 http://deb.debian.org/debian bookworm/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get:229 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biostrings amd64 2.66.0-1 [13.8 MB] Get:230 http://deb.debian.org/debian bookworm/main amd64 r-bioc-keggrest all 1.38.0+dfsg-1 [179 kB] Get:231 http://deb.debian.org/debian bookworm/main amd64 r-bioc-annotationdbi all 1.60.0-1 [4696 kB] Get:232 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcolorbrewer all 1.1-3-1 [54.7 kB] Get:233 http://deb.debian.org/debian bookworm/main amd64 r-bioc-geneplotter all 1.76.0-1 [1488 kB] Get:234 http://deb.debian.org/debian bookworm/main amd64 r-cran-survival amd64 3.5-3-1 [5910 kB] Get:235 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genefilter amd64 1.80.3-1 [1042 kB] Get:236 http://deb.debian.org/debian bookworm/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get:237 http://deb.debian.org/debian bookworm/main amd64 r-cran-codetools all 0.2-19-1 [90.9 kB] Get:238 http://deb.debian.org/debian bookworm/main amd64 r-cran-bh all 1.74.0-2 [5524 B] Get:239 http://deb.debian.org/debian bookworm/main amd64 r-cran-cpp11 all 0.4.3-1 [223 kB] Get:240 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocparallel amd64 1.32.5-1 [1337 kB] Get:241 http://deb.debian.org/debian bookworm/main amd64 r-cran-locfit amd64 1.5-9.7-1 [507 kB] Get:242 http://deb.debian.org/debian bookworm/main amd64 r-cran-gtable all 0.3.1+dfsg-1 [165 kB] Get:243 http://deb.debian.org/debian bookworm/main amd64 r-cran-isoband amd64 0.2.7-1 [1614 kB] Get:244 http://deb.debian.org/debian bookworm/main amd64 r-cran-mass amd64 7.3-58.2-1 [1121 kB] Get:245 http://deb.debian.org/debian bookworm/main amd64 r-cran-nlme amd64 3.1.162-1 [2260 kB] Get:246 http://deb.debian.org/debian bookworm/main amd64 r-cran-mgcv amd64 1.8-41-1 [3171 kB] Get:247 http://deb.debian.org/debian bookworm/main amd64 r-cran-farver amd64 2.1.1-1 [1404 kB] Get:248 http://deb.debian.org/debian bookworm/main amd64 r-cran-viridislite all 0.4.1-1 [1299 kB] Get:249 http://deb.debian.org/debian bookworm/main amd64 r-cran-scales all 1.2.1-1 [614 kB] Get:250 http://deb.debian.org/debian bookworm/main amd64 r-cran-fansi amd64 1.0.4-1 [619 kB] Get:251 http://deb.debian.org/debian bookworm/main amd64 r-cran-utf8 amd64 1.2.3-1 [133 kB] Get:252 http://deb.debian.org/debian bookworm/main amd64 r-cran-pillar all 1.8.1+dfsg-1 [463 kB] Get:253 http://deb.debian.org/debian bookworm/main amd64 r-cran-magrittr amd64 2.0.3-1 [201 kB] Get:254 http://deb.debian.org/debian bookworm/main amd64 r-cran-tibble amd64 3.1.8+dfsg-1 [513 kB] Get:255 http://deb.debian.org/debian bookworm/main amd64 r-cran-withr all 2.5.0-1 [236 kB] Get:256 http://deb.debian.org/debian bookworm/main amd64 r-cran-ggplot2 all 3.4.1+dfsg-1 [3333 kB] Get:257 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpparmadillo amd64 0.12.0.1.0-1 [841 kB] Get:258 http://deb.debian.org/debian bookworm/main amd64 r-bioc-deseq2 amd64 1.38.3+dfsg-1 [1288 kB] Get:259 http://deb.debian.org/debian bookworm/main amd64 r-bioc-annotate all 1.76.0+dfsg-1 [1727 kB] Get:260 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocgenerics all 0.44.0-2 [600 kB] Get:261 http://deb.debian.org/debian bookworm/main amd64 r-cran-xml amd64 3.99-0.13-1 [1717 kB] Get:262 http://deb.debian.org/debian bookworm/main amd64 r-cran-bit amd64 4.0.5-1 [1070 kB] Get:263 http://deb.debian.org/debian bookworm/main amd64 r-cran-brio amd64 1.1.3-1+b1 [35.5 kB] Get:264 http://deb.debian.org/debian bookworm/main amd64 r-cran-ps amd64 1.7.2-1 [308 kB] Get:265 http://deb.debian.org/debian bookworm/main amd64 r-cran-processx amd64 3.8.0-1 [339 kB] Get:266 http://deb.debian.org/debian bookworm/main amd64 r-cran-callr all 3.7.3-2 [426 kB] Get:267 http://deb.debian.org/debian bookworm/main amd64 r-cran-colorspace amd64 2.1-0+dfsg-1 [1692 kB] Get:268 http://deb.debian.org/debian bookworm/main amd64 r-cran-rprojroot all 2.0.3-1 [119 kB] Get:269 http://deb.debian.org/debian bookworm/main amd64 r-cran-desc all 1.4.2-1 [348 kB] Get:270 http://deb.debian.org/debian bookworm/main amd64 r-cran-diffobj amd64 0.3.5-1+b1 [1122 kB] Get:271 http://deb.debian.org/debian bookworm/main amd64 r-cran-digest amd64 0.6.31-1 [184 kB] Get:272 http://deb.debian.org/debian bookworm/main amd64 r-cran-ellipsis amd64 0.3.2-2 [35.1 kB] Get:273 http://deb.debian.org/debian bookworm/main amd64 r-cran-evaluate all 0.20-1 [85.9 kB] Get:274 http://deb.debian.org/debian bookworm/main amd64 r-cran-formatr all 1.14-1 [152 kB] Get:275 http://deb.debian.org/debian bookworm/main amd64 r-cran-fs amd64 1.6.1+dfsg-1 [226 kB] Get:276 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgbuild all 1.4.0-1 [187 kB] Get:277 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgload all 1.3.2-1 [206 kB] Get:278 http://deb.debian.org/debian bookworm/main amd64 r-cran-rstudioapi all 0.14-1 [281 kB] Get:279 http://deb.debian.org/debian bookworm/main amd64 r-cran-sys amd64 3.4.1-1 [42.7 kB] Get:280 http://deb.debian.org/debian bookworm/main amd64 r-cran-waldo all 0.4.0-1 [116 kB] Get:281 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 235 MB in 5s (50.7 MB/s) (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 ... 37068 files and directories currently installed.) Preparing to unpack .../dash_0.5.12-2_amd64.deb ... Unpacking dash (0.5.12-2) over (0.5.11+git20200708+dd9ef66-5) ... Setting up dash (0.5.12-2) ... (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 ... 37069 files and directories currently installed.) Preparing to unpack .../findutils_4.9.0-4_amd64.deb ... Unpacking findutils (4.9.0-4) over (4.8.0-1) ... Setting up findutils (4.9.0-4) ... (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 ... 37069 files and directories currently installed.) Preparing to unpack .../archives/grep_3.8-5_amd64.deb ... Unpacking grep (3.8-5) over (3.6-1+deb11u1) ... Setting up grep (3.8-5) ... (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 ... 37071 files and directories currently installed.) Preparing to unpack .../archives/gzip_1.12-1_amd64.deb ... Unpacking gzip (1.12-1) over (1.10-4+deb11u1) ... Setting up gzip (1.12-1) ... (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 ... 37071 files and directories currently installed.) Preparing to unpack .../hostname_3.23+nmu1_amd64.deb ... Unpacking hostname (3.23+nmu1) over (3.23) ... Setting up hostname (3.23+nmu1) ... (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 ... 37069 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.4-4_amd64.deb ... Unpacking ncurses-bin (6.4-4) over (6.2+20201114-2+deb11u2) ... Setting up ncurses-bin (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 ... 37069 files and directories currently installed.) Preparing to unpack .../archives/sed_4.9-1_amd64.deb ... Unpacking sed (4.9-1) over (4.7-1) ... Setting up sed (4.9-1) ... (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 ... 37070 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.46-1_amd64.deb ... Unpacking libgpg-error0:amd64 (1.46-1) over (1.38-2) ... Setting up libgpg-error0:amd64 (1.46-1) ... (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 ... 37070 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.10.1-3_amd64.deb ... Unpacking libgcrypt20:amd64 (1.10.1-3) over (1.8.7-6) ... Setting up libgcrypt20:amd64 (1.10.1-3) ... (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 ... 37072 files and directories currently installed.) Preparing to unpack .../libstdc++6_12.2.0-14_amd64.deb ... Unpacking libstdc++6:amd64 (12.2.0-14) over (10.2.1-6) ... Setting up libstdc++6: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 ... 37072 files and directories currently installed.) Preparing to unpack .../libbz2-1.0_1.0.8-5+b1_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.8-5+b1) over (1.0.8-4) ... Setting up libbz2-1.0:amd64 (1.0.8-5+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 ... 37073 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.9.4-1_amd64.deb ... Unpacking liblz4-1:amd64 (1.9.4-1) over (1.9.3-2) ... Setting up liblz4-1:amd64 (1.9.4-1) ... Selecting previously unselected package libcap2: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 ... 37073 files and directories currently installed.) Preparing to unpack .../libcap2_1%3a2.66-4_amd64.deb ... Unpacking libcap2:amd64 (1:2.66-4) ... Setting up libcap2:amd64 (1:2.66-4) ... (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 ... 37081 files and directories currently installed.) Preparing to unpack .../libsystemd0_252.26-1~deb12u2_amd64.deb ... Unpacking libsystemd0:amd64 (252.26-1~deb12u2) over (247.3-7+deb11u5) ... Setting up libsystemd0:amd64 (252.26-1~deb12u2) ... (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 ... 37082 files and directories currently installed.) Preparing to unpack .../libudev1_252.26-1~deb12u2_amd64.deb ... Unpacking libudev1:amd64 (252.26-1~deb12u2) over (247.3-7+deb11u5) ... Setting up libudev1:amd64 (252.26-1~deb12u2) ... (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 ... 37083 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 ... 37083 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 ... 37086 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 ... (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 ... 37086 files and directories currently installed.) Preparing to unpack .../libnettle8_3.8.1-2_amd64.deb ... Unpacking libnettle8:amd64 (3.8.1-2) over (3.7.3-1) ... Setting up libnettle8:amd64 (3.8.1-2) ... (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 ... 37086 files and directories currently installed.) Preparing to unpack .../libhogweed6_3.8.1-2_amd64.deb ... Unpacking libhogweed6:amd64 (3.8.1-2) over (3.7.3-1) ... Setting up libhogweed6:amd64 (3.8.1-2) ... (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 ... 37086 files and directories currently installed.) Preparing to unpack .../libunistring2_1.0-2_amd64.deb ... Unpacking libunistring2:amd64 (1.0-2) over (0.9.10-4) ... Setting up libunistring2:amd64 (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 ... 37086 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 ... 37088 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 ... 37093 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 ... 37093 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 ... 37093 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 ... 37095 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 ... 37095 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 ... 37099 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 ... 37104 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 ... 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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 ... 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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 ... 37110 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 ... 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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 ... 37107 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 ... 37107 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 ... 38529 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 ... 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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 ... 39125 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 ... 39140 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 ... 39147 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 ... 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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 ... 39149 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 ... 39149 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 ... 39149 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 ... 39150 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 ... 39151 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 ... (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 ... 39151 files and directories currently installed.) Preparing to unpack .../libpcre3_2%3a8.39-15_amd64.deb ... Unpacking libpcre3:amd64 (2:8.39-15) over (2:8.39-13) ... Setting up libpcre3:amd64 (2:8.39-15) ... (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 ... 39151 files and directories currently installed.) Preparing to unpack .../libuuid1_2.38.1-5+deb12u1_amd64.deb ... Unpacking libuuid1:amd64 (2.38.1-5+deb12u1) over (2.36.1-8+deb11u2) ... Setting up libuuid1: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 ... 39151 files and directories currently installed.) Preparing to unpack .../000-mawk_1.3.4.20200120-3.1_amd64.deb ... Unpacking mawk (1.3.4.20200120-3.1) over (1.3.4.20200120-2) ... Preparing to unpack .../001-tzdata_2024a-0+deb12u1_all.deb ... Unpacking tzdata (2024a-0+deb12u1) over (2024a-0+deb11u1) ... Preparing to unpack .../002-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) over (8.1-1) ... Preparing to unpack .../003-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) over (0.0.14) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../004-libssl3_3.0.13-1~deb12u1_amd64.deb ... Unpacking libssl3:amd64 (3.0.13-1~deb12u1) ... Preparing to unpack .../005-openssl_3.0.13-1~deb12u1_amd64.deb ... Unpacking openssl (3.0.13-1~deb12u1) over (1.1.1w-0+deb11u1) ... Preparing to unpack .../006-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) over (20210119) ... Preparing to unpack .../007-ucf_3.0043+nmu1_all.deb ... Unpacking ucf (3.0043+nmu1) over (3.0043) ... Preparing to unpack .../008-fonts-dejavu-core_2.37-6_all.deb ... Unpacking fonts-dejavu-core (2.37-6) over (2.37-2) ... Preparing to unpack .../009-fontconfig-config_2.14.1-4_amd64.deb ... Unpacking fontconfig-config (2.14.1-4) over (2.13.1-4.2) ... Preparing to unpack .../010-libexpat1_2.5.0-1_amd64.deb ... 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Setting up r-cran-mgcv (1.8-41-1) ... Setting up r-cran-cachem (1.0.7-1) ... Setting up r-cran-rcpparmadillo (0.12.0.1.0-1) ... Setting up r-bioc-iranges (2.32.0-1) ... Setting up r-cran-rcurl (1.98-1.10+dfsg-1) ... Setting up r-cran-vctrs (0.5.2-1) ... Setting up r-bioc-delayedarray (0.24.0+dfsg-1) ... Setting up r-cran-pillar (1.8.1+dfsg-1) ... Setting up r-cran-ellipsis (0.3.2-2) ... Setting up r-bioc-biocparallel (1.32.5-1) ... Setting up r-cran-callr (3.7.3-2) ... Setting up r-cran-desc (1.4.2-1) ... Setting up r-cran-tibble (3.1.8+dfsg-1) ... Setting up r-cran-survival (3.5-3-1) ... Setting up r-bioc-genomeinfodb (1.34.9-1) ... Setting up r-cran-waldo (0.4.0-1) ... Setting up r-cran-memoise (2.0.1-1) ... Setting up r-cran-blob (1.2.3-1) ... Setting up r-bioc-xvector (0.38.0-1) ... Setting up r-cran-pkgbuild (1.4.0-1) ... Setting up r-cran-rsqlite (2.2.20-1) ... Setting up r-cran-pkgload (1.3.2-1) ... Setting up r-cran-ggplot2 (3.4.1+dfsg-1) ... Setting up r-bioc-genomicranges (1.50.2+dfsg-1) ... Setting up r-bioc-biostrings (2.66.0-1) ... Setting up r-cran-testthat (3.1.6-1) ... 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-annotate (1.76.0+dfsg-1) ... Setting up r-bioc-genefilter (1.80.3-1) ... Setting up r-bioc-geneplotter (1.76.0-1) ... Setting up r-bioc-deseq2 (1.38.3+dfsg-1) ... Processing triggers for debianutils (5.7-0.5~deb12u1) ... Processing triggers for libc-bin (2.36-9+deb12u7) ... 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. 1m47.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-yf', 'dist-upgrade'] 1m47.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m49.2s DUMP: 913e17be84ed63a3110ce3137c1d003a - 1m49.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m49.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-deseq2'] 1m49.5s DUMP: Package: r-bioc-deseq2 Version: 1.38.3+dfsg-1 Installed-Size: 1757 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.2.2.20221110-2), r-api-4.0, r-api-bioc-3.16, r-bioc-s4vectors (>= 0.23.18), r-bioc-iranges, r-bioc-genomicranges, r-bioc-summarizedexperiment (>= 1.1.6), r-bioc-biocgenerics (>= 0.7.5), r-bioc-biobase, r-bioc-biocparallel, r-cran-matrixstats, r-cran-locfit, r-bioc-geneplotter, r-cran-ggplot2, r-cran-rcpp (>= 0.11.0), r-cran-rcpparmadillo, libblas3 | libblas.so.3, libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 9) Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-pheatmap, r-cran-rcolorbrewer, r-bioc-tximport, r-bioc-tximeta, r-bioc-tximportdata, r-cran-readr, r-cran-pbapply, r-bioc-glmgampoi, r-cran-biocmanager Description-en: R package for RNA-Seq Differential Expression Analysis Differential gene expression analysis based on the negative binomial distribution. Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution. Description-md5: ae9e1d3c5793b8ca7b76c769e1059db8 Homepage: https://bioconductor.org/packages/DESeq2/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-deseq2/r-bioc-deseq2_1.38.3+dfsg-1_amd64.deb Size: 1288432 MD5sum: ec0f1e896be076c33de0b9da3347c1d2 SHA256: 9c687ae10131001b589e8f9e5e4dd852e1a8ca148277c296c0cfc195b269dc4c 1m49.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-deseq2'] 1m49.5s INFO: apt-cache knows about the following packages: r-bioc-deseq2 1m49.5s INFO: Running scripts pre_install 1m49.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 1m49.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 1m49.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 1m49.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 1m49.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 1m49.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 1m49.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 1m49.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 1m49.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m49.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m49.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 1m49.6s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m49.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 1m49.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 1m49.7s DUMP: r-bioc-deseq2: Installed: 1.38.3+dfsg-1 Candidate: 1.38.3+dfsg-1 Version table: *** 1.38.3+dfsg-1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 1m49.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 1m49.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2'] 1m50.2s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-deseq2 is already the newest version (1.38.3+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 r-cran-assertthat Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m50.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2'] 1m50.2s INFO: Running scripts post_install 1m50.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 1m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 1m50.3s INFO: Running scripts post_distupgrade 1m50.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m50.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_exceptions'] 1m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_exceptions'] 1m50.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m50.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m50.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_zz_backports'] 1m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_zz_backports'] 1m50.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 1m51.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 1m51.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpdnpk9mu6 to sid 1m51.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 1m51.6s INFO: Running scripts pre_distupgrade 1m51.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m51.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m51.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_exceptions'] 1m51.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_exceptions'] 1m51.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m51.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m51.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m51.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m51.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m51.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m51.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'update'] 1m56.2s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9968 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7297 kB] Fetched 17.5 MB in 4s (4806 kB/s) Reading package lists... 1m56.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'update'] 1m56.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-yf', 'dist-upgrade'] 2m52.9s 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-cran-assertthat r-cran-ellipsis r-cran-prettyunits r-cran-rcurl 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 libhogweed6 libnettle8 libpng16-16 libpsl5 libreadline8 libssh2-1 libssl3 libtirpc3 libuv1 libxt6 r-bioc-genefilter r-bioc-geneplotter The following NEW packages will be installed: fonts-dejavu-mono gcc-14-base libapt-pkg6.0t64 libboost1.83-dev libcurl4t64 libdb5.3t64 libext2fs2t64 libgcc-14-dev libgdbm-compat4t64 libgdbm6t64 libglib2.0-0t64 libgnutls30t64 libhogweed6t64 libhwasan0 libnettle8t64 libperl5.38t64 libpng16-16t64 libpsl5t64 libreadline8t64 libsharpyuv0 libssh2-1t64 libssl3t64 libstdc++-14-dev libtirpc3t64 libunistring5 libuv1t64 libxt6t64 login.defs perl-modules-5.38 r-bioc-s4arrays r-bioc-sparsearray r-bioc-ucsc.utils r-cran-abind 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 hostname init-system-helpers libacl1 libasan6 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libboost-dev libbrotli1 libbsd0 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcairo2 libcap-ng0 libcap2 libcom-err2 libcrypt-dev libcrypt1 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 libice6 libicu72 libidn2-0 libitm1 libjbig0 libjpeg62-turbo 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 libpcre3 libpixman-1-0 libquadmath0 librtmp1 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsm6 libsmartcols1 libss2 libstdc++-12-dev libstdc++6 libsystemd0 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-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings r-bioc-delayedarray r-bioc-deseq2 r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-xvector r-bioc-zlibbioc r-cran-askpass r-cran-bh r-cran-blob r-cran-brio r-cran-cachem r-cran-callr r-cran-cli r-cran-codetools r-cran-cpp11 r-cran-curl r-cran-dbi r-cran-desc r-cran-digest r-cran-evaluate r-cran-fansi r-cran-farver r-cran-formatr r-cran-fs r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-httr r-cran-jsonlite r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-mass r-cran-matrix r-cran-matrixstats 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-ps r-cran-rcpp r-cran-rcpparmadillo r-cran-rcurl r-cran-rlang r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-scales r-cran-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml readline-common sed sensible-utils sysvinit-utils tar tzdata usrmerge util-linux util-linux-extra x11-common zip zlib1g zlib1g-dev 250 upgraded, 33 newly installed, 21 to remove and 0 not upgraded. Need to get 242 MB of archives. After this operation, 139 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 base-files amd64 13.5 [72.8 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libnsl-dev amd64 1.3.0-3+b2 [67.2 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.36-5 [118 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libc6-dev amd64 2.39-7 [1925 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libc-dev-bin amd64 2.39-7 [51.6 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [189 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.2-1 [425 kB] Get:9 http://deb.debian.org/debian sid/main amd64 r-cran-curl amd64 5.2.1+dfsg-1 [178 kB] Get:10 http://deb.debian.org/debian sid/main amd64 r-cran-rcurl amd64 1.98-1.14+dfsg-1+b1 [787 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.9.1-2 [463 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.7-2 [128 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.6+dfsg-1 [303 kB] Get:15 http://deb.debian.org/debian sid/main amd64 r-cran-sys amd64 3.4.2-1 [43.7 kB] Get:16 http://deb.debian.org/debian sid/main amd64 r-cran-askpass amd64 1.2.0-1 [24.0 kB] Get:17 http://deb.debian.org/debian sid/main amd64 r-cran-openssl amd64 2.2.0+dfsg-1 [401 kB] Get:18 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.3.1-6 [1381 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.39-7 [2791 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.39-7 [610 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libssl3t64 amd64 3.3.1-6 [2270 kB] Get:22 http://deb.debian.org/debian sid/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get:23 http://deb.debian.org/debian sid/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1 [87.9 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:32 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b1 [559 kB] Get:33 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.50-3 [81.5 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.11.0-6 [843 kB] Get:36 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-2 [46.0 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-2 [72.8 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-2 [714 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libnettle8t64 amd64 3.10-1 [303 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libhogweed6t64 amd64 3.10-1 [334 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.5-2 [424 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.6-2 [1444 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.8 [1045 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libbz2-1.0 amd64 1.0.8-5.1 [38.0 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libxxhash0 amd64 0.8.2-2+b1 [26.6 kB] Get:46 http://deb.debian.org/debian sid/main amd64 liblz4-1 amd64 1.9.4-3 [59.4 kB] Get:47 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.6.2-2 [254 kB] Get:48 http://deb.debian.org/debian sid/main amd64 libcap2 amd64 1:2.66-5 [27.4 kB] Get:49 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 256.5-1 [381 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 256.5-1 [144 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.272 [10.0 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.42-4+b1 [262 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.5-2+b4 [75.1 kB] Get:54 http://deb.debian.org/debian sid/main amd64 base-passwd amd64 3.6.4 [50.9 kB] Get:55 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.16.0-4 [185 kB] Get:56 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-7 [19.6 kB] Get:57 http://deb.debian.org/debian sid/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-7 [697 kB] Get:58 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.1-1 [12.3 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libcap-ng0 amd64 0.8.5-1+b1 [17.4 kB] Get:60 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.1-1 [54.5 kB] Get:61 http://deb.debian.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.36-5 [89.8 kB] Get:62 http://deb.debian.org/debian sid/main amd64 perl-modules-5.38 all 5.38.2-5 [2905 kB] Get:63 http://deb.debian.org/debian sid/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:65 http://deb.debian.org/debian sid/main amd64 libperl5.38t64 amd64 5.38.2-5 [4275 kB] Get:66 http://deb.debian.org/debian sid/main amd64 perl amd64 5.38.2-5 [236 kB] Get:67 http://deb.debian.org/debian sid/main amd64 perl-base amd64 5.38.2-5 [1643 kB] Get:68 http://deb.debian.org/debian sid/main amd64 debconf all 1.5.87 [119 kB] Get:69 http://deb.debian.org/debian sid/main amd64 libpam0g amd64 1.5.3-7 [67.7 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libpam-modules-bin amd64 1.5.3-7 [54.4 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libpam-modules amd64 1.5.3-7 [265 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libacl1 amd64 2.3.2-2 [32.4 kB] Get:73 http://deb.debian.org/debian sid/main amd64 libattr1 amd64 1:2.5.2-1 [22.5 kB] Get:74 http://deb.debian.org/debian sid/main amd64 libmd0 amd64 1.1.0-2 [35.8 kB] Get:75 http://deb.debian.org/debian sid/main amd64 libbsd0 amd64 0.12.2-1 [131 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libsemanage-common all 3.5-1 [9908 B] Get:77 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.7-1 [293 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libsemanage2 amd64 3.5-1+b4 [90.1 kB] Get:79 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.16.0-4 [1232 kB] Get:80 http://deb.debian.org/debian sid/main amd64 adduser all 3.137 [140 kB] Get:81 http://deb.debian.org/debian sid/main amd64 gpgv amd64 2.2.43-8 [216 kB] Get:82 http://deb.debian.org/debian sid/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libseccomp2 amd64 2.5.5-1+b1 [47.3 kB] Get:84 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.8 [1410 kB] Get:85 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:86 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.19.0-3+b2 [48.9 kB] Get:87 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-7 [57.2 kB] Get:88 http://deb.debian.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-2 [186 kB] Get:89 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.62.1-2 [74.9 kB] Get:90 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-7 [167 kB] Get:91 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-7 [199 kB] Get:92 http://deb.debian.org/debian sid/main amd64 r-cran-png amd64 0.1-8-1+b1 [41.5 kB] Get:93 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:94 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:95 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get:96 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get:97 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get:98 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get:99 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:100 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:101 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:102 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:103 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:104 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get:105 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:106 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get:107 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.0-3+b1 [531 kB] Get:108 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get:109 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b4 [439 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 9.0.0-1 [474 kB] Get:112 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-1 [35.0 kB] Get:113 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.54.0+ds-1 [219 kB] Get:114 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-1 [48.0 kB] Get:115 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.15.0-1.1 [463 kB] Get:116 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:117 http://deb.debian.org/debian sid/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:118 http://deb.debian.org/debian sid/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get:119 http://deb.debian.org/debian sid/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get:120 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.81.1-3 [1496 kB] Get:121 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-2 [9288 B] Get:122 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-4 [167 kB] Get:123 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-4 [69.3 kB] Get:124 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.5-2 [344 kB] Get:125 http://deb.debian.org/debian sid/main amd64 libxt6t64 amd64 1:1.2.1-1.2 [187 kB] Get:126 http://deb.debian.org/debian sid/main amd64 debianutils amd64 5.20 [89.5 kB] Get:127 http://deb.debian.org/debian sid/main amd64 tar amd64 1.35+dfsg-3 [813 kB] Get:128 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.22.11 [1531 kB] Get:129 http://deb.debian.org/debian sid/main amd64 sysvinit-utils amd64 3.10-1 [32.7 kB] Get:130 http://deb.debian.org/debian sid/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:131 http://deb.debian.org/debian sid/main amd64 libice6 amd64 2:1.0.10-1+b1 [56.7 kB] Get:132 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-7 [35.3 kB] Get:133 http://deb.debian.org/debian sid/main amd64 libsm6 amd64 2:1.2.3-1+b1 [33.6 kB] Get:134 http://deb.debian.org/debian sid/main amd64 r-cran-ps amd64 1.7.6-1 [310 kB] Get:135 http://deb.debian.org/debian sid/main amd64 r-cran-cli amd64 3.6.2-1 [1325 kB] Get:136 http://deb.debian.org/debian sid/main amd64 r-cran-fansi amd64 1.0.5-1 [621 kB] Get:137 http://deb.debian.org/debian sid/main amd64 r-cran-glue amd64 1.7.0-1 [157 kB] Get:138 http://deb.debian.org/debian sid/main amd64 r-cran-rlang amd64 1.1.4-1 [1712 kB] Get:139 http://deb.debian.org/debian sid/main amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] Get:140 http://deb.debian.org/debian sid/main amd64 r-cran-utf8 amd64 1.2.4-1 [133 kB] Get:141 http://deb.debian.org/debian sid/main amd64 r-cran-vctrs amd64 0.6.5-1 [1375 kB] Get:142 http://deb.debian.org/debian sid/main amd64 r-cran-pillar all 1.9.0+dfsg-1 [463 kB] Get:143 http://deb.debian.org/debian sid/main amd64 r-cran-tibble amd64 3.2.1+dfsg-2 [420 kB] Get:144 http://deb.debian.org/debian sid/main amd64 zip amd64 3.0-14 [233 kB] Get:145 http://deb.debian.org/debian sid/main amd64 libpaper1 amd64 1.1.29+b1 [12.9 kB] Get:146 http://deb.debian.org/debian sid/main amd64 libpaper-utils amd64 1.1.29+b1 [9176 B] Get:147 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:148 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.21-1 [47.3 kB] Get:149 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-2 [137 kB] Get:150 http://deb.debian.org/debian sid/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:151 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:152 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-2 [837 kB] Get:153 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:154 http://deb.debian.org/debian sid/main amd64 tzdata all 2024a-4 [255 kB] Get:155 http://deb.debian.org/debian sid/main amd64 libtcl8.6 amd64 8.6.14+dfsg-1 [1034 kB] Get:156 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get:157 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get:158 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:159 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:160 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:161 http://deb.debian.org/debian sid/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get:162 http://deb.debian.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1+b1 [17.0 kB] Get:163 http://deb.debian.org/debian sid/main amd64 libtk8.6 amd64 8.6.14-1 [784 kB] Get:164 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20240203 [158 kB] Get:165 http://deb.debian.org/debian sid/main amd64 r-base-core amd64 4.4.1-1 [28.3 MB] Get:166 http://deb.debian.org/debian sid/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get:167 http://deb.debian.org/debian sid/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get:168 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.10.4-1 [2369 kB] Get:169 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.21-2.1+b1 [1498 kB] Get:170 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-7 [105 kB] Get:171 http://deb.debian.org/debian sid/main amd64 usrmerge all 39 [13.1 kB] Get:172 http://deb.debian.org/debian sid/main amd64 coreutils amd64 9.4-3.1 [2950 kB] Get:173 http://deb.debian.org/debian sid/main amd64 dash amd64 0.5.12-9 [93.2 kB] Get:174 http://deb.debian.org/debian sid/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:175 http://deb.debian.org/debian sid/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:176 http://deb.debian.org/debian sid/main amd64 grep amd64 3.11-4 [431 kB] Get:177 http://deb.debian.org/debian sid/main amd64 gzip amd64 1.12-1.1 [133 kB] Get:178 http://deb.debian.org/debian sid/main amd64 hostname amd64 3.23+nmu2 [10.6 kB] Get:179 http://deb.debian.org/debian sid/main amd64 libpam-runtime all 1.5.3-7 [140 kB] Get:180 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-7 [57.7 kB] Get:181 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.5-2 [433 kB] Get:182 http://deb.debian.org/debian sid/main amd64 sed amd64 4.9-2 [329 kB] Get:183 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-7 [139 kB] Get:184 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-7 [1217 kB] Get:185 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.40.2-7 [265 kB] Get:186 http://deb.debian.org/debian sid/main amd64 init-system-helpers all 1.66 [39.0 kB] Get:187 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.5-2 [270 kB] Get:188 http://deb.debian.org/debian sid/main amd64 libitm1 amd64 14.2.0-2 [25.9 kB] Get:189 http://deb.debian.org/debian sid/main amd64 libasan8 amd64 14.2.0-2 [2724 kB] Get:190 http://deb.debian.org/debian sid/main amd64 liblsan0 amd64 14.2.0-2 [1205 kB] Get:191 http://deb.debian.org/debian sid/main amd64 libubsan1 amd64 14.2.0-2 [1075 kB] Get:192 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14.2.0-2 [145 kB] Get:193 http://deb.debian.org/debian sid/main amd64 libstdc++-12-dev amd64 12.4.0-2 [2081 kB] Get:194 http://deb.debian.org/debian sid/main amd64 libgcc-12-dev amd64 12.4.0-2 [2431 kB] Get:195 http://deb.debian.org/debian sid/main amd64 libtsan2 amd64 14.2.0-2 [2461 kB] Get:196 http://deb.debian.org/debian sid/main amd64 gcc-12-base amd64 12.4.0-2 [42.9 kB] Get:197 http://deb.debian.org/debian sid/main amd64 libhwasan0 amd64 14.2.0-2 [1489 kB] Get:198 http://deb.debian.org/debian sid/main amd64 libgcc-14-dev amd64 14.2.0-2 [2672 kB] Get:199 http://deb.debian.org/debian sid/main amd64 libstdc++-14-dev amd64 14.2.0-2 [2343 kB] Get:200 http://deb.debian.org/debian sid/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:201 http://deb.debian.org/debian sid/main amd64 libboost1.83-dev amd64 1.83.0-3.1 [10.6 MB] Get:202 http://deb.debian.org/debian sid/main amd64 logsave amd64 1.47.1-1 [22.7 kB] Get:203 http://deb.debian.org/debian sid/main amd64 libext2fs2t64 amd64 1.47.1-1 [210 kB] Get:204 http://deb.debian.org/debian sid/main amd64 e2fsprogs amd64 1.47.1-1 [583 kB] Get:205 http://deb.debian.org/debian sid/main amd64 r-cran-fs amd64 1.6.4+dfsg-1 [247 kB] Get:206 http://deb.debian.org/debian sid/main amd64 libuv1t64 amd64 1.48.0-5 [148 kB] Get:207 http://deb.debian.org/debian sid/main amd64 r-bioc-biobase amd64 2.64.0-1 [2132 kB] Get:208 http://deb.debian.org/debian sid/main amd64 r-bioc-s4vectors amd64 0.42.1+dfsg-1 [1894 kB] Get:209 http://deb.debian.org/debian sid/main amd64 r-bioc-iranges amd64 2.38.1-1 [2305 kB] Get:210 http://deb.debian.org/debian sid/main amd64 r-cran-dbi all 1.2.3-1 [852 kB] Get:211 http://deb.debian.org/debian sid/main amd64 r-cran-blob all 1.2.4-1 [49.6 kB] Get:212 http://deb.debian.org/debian sid/main amd64 r-cran-cpp11 all 0.4.7-1 [219 kB] Get:213 http://deb.debian.org/debian sid/main amd64 r-cran-rsqlite amd64 2.3.7-2 [1187 kB] Get:214 http://deb.debian.org/debian sid/main amd64 r-cran-jsonlite amd64 1.8.8+dfsg-1 [443 kB] Get:215 http://deb.debian.org/debian sid/main amd64 r-cran-mime amd64 0.12-2 [35.6 kB] Get:216 http://deb.debian.org/debian sid/main amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get:217 http://deb.debian.org/debian sid/main amd64 r-bioc-zlibbioc all 1.50.0+dfsg-1 [9652 B] Get:218 http://deb.debian.org/debian sid/main amd64 r-bioc-xvector amd64 0.44.0-1 [622 kB] Get:219 http://deb.debian.org/debian sid/main amd64 r-bioc-ucsc.utils all 1.0.0+ds-2 [77.0 kB] Get:220 http://deb.debian.org/debian sid/main amd64 r-bioc-genomeinfodbdata all 1.2.12-1 [12.6 MB] Get:221 http://deb.debian.org/debian sid/main amd64 r-bioc-genomeinfodb all 1.40.1+dfsg-1 [3843 kB] Get:222 http://deb.debian.org/debian sid/main amd64 r-bioc-biostrings amd64 2.72.1+dfsg-1 [13.3 MB] Get:223 http://deb.debian.org/debian sid/main amd64 r-bioc-keggrest all 1.44.1+dfsg-1 [183 kB] Get:224 http://deb.debian.org/debian sid/main amd64 r-bioc-annotationdbi all 1.66.0-1 [4682 kB] Get:225 http://deb.debian.org/debian sid/main amd64 libxml2 amd64 2.12.7+dfsg-3+b1 [671 kB] Get:226 http://deb.debian.org/debian sid/main amd64 r-cran-xml amd64 3.99-0.17-1 [1761 kB] Get:227 http://deb.debian.org/debian sid/main amd64 r-bioc-annotate all 1.82.0+dfsg-1 [1763 kB] Get:228 http://deb.debian.org/debian sid/main amd64 r-cran-matrixstats amd64 1.3.0-1 [502 kB] Get:229 http://deb.debian.org/debian sid/main amd64 r-bioc-matrixgenerics all 1.16.0-1 [423 kB] Get:230 http://deb.debian.org/debian sid/main amd64 r-bioc-genomicranges amd64 1.56.1+dfsg-1 [1842 kB] Get:231 http://deb.debian.org/debian sid/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:232 http://deb.debian.org/debian sid/main amd64 r-cran-matrix amd64 1.7-0-3 [4127 kB] Get:233 http://deb.debian.org/debian sid/main amd64 r-cran-abind all 1.4-5-2 [64.6 kB] Get:234 http://deb.debian.org/debian sid/main amd64 r-bioc-s4arrays amd64 1.4.1+dfsg-1 [524 kB] Get:235 http://deb.debian.org/debian sid/main amd64 r-bioc-sparsearray amd64 1.4.8+dfsg-1 [1254 kB] Get:236 http://deb.debian.org/debian sid/main amd64 r-bioc-delayedarray amd64 0.30.1+dfsg-1 [1847 kB] Get:237 http://deb.debian.org/debian sid/main amd64 r-bioc-summarizedexperiment all 1.34.0+dfsg-1 [1102 kB] Get:238 http://deb.debian.org/debian sid/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:239 http://deb.debian.org/debian sid/main amd64 r-cran-bh all 1.84.0-1 [5912 B] Get:240 http://deb.debian.org/debian sid/main amd64 r-bioc-biocparallel amd64 1.38.0-2 [1325 kB] Get:241 http://deb.debian.org/debian sid/main amd64 r-bioc-deseq2 amd64 1.44.0+dfsg-1 [1283 kB] Get:242 http://deb.debian.org/debian sid/main amd64 r-bioc-biocgenerics all 0.50.0-1 [606 kB] Get:243 http://deb.debian.org/debian sid/main amd64 r-cran-locfit amd64 1.5-9.9-1 [514 kB] Get:244 http://deb.debian.org/debian sid/main amd64 r-cran-gtable all 0.3.5+dfsg-1 [222 kB] Get:245 http://deb.debian.org/debian sid/main amd64 r-cran-mass amd64 7.3-61-1 [1112 kB] Get:246 http://deb.debian.org/debian sid/main amd64 r-cran-nlme amd64 3.1.166-1 [2330 kB] Get:247 http://deb.debian.org/debian sid/main amd64 r-cran-mgcv amd64 1.9-1-1 [3233 kB] Get:248 http://deb.debian.org/debian sid/main amd64 r-cran-farver amd64 2.1.2-1 [1411 kB] Get:249 http://deb.debian.org/debian sid/main amd64 r-cran-labeling all 0.4.3-1 [62.4 kB] Get:250 http://deb.debian.org/debian sid/main amd64 r-cran-munsell all 0.5.1-1 [237 kB] Get:251 http://deb.debian.org/debian sid/main amd64 r-cran-viridislite all 0.4.2-2 [1299 kB] Get:252 http://deb.debian.org/debian sid/main amd64 r-cran-scales all 1.3.0-1 [677 kB] Get:253 http://deb.debian.org/debian sid/main amd64 r-cran-withr all 3.0.0+dfsg-1 [240 kB] Get:254 http://deb.debian.org/debian sid/main amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3933 kB] Get:255 http://deb.debian.org/debian sid/main amd64 r-cran-littler amd64 0.3.20-1 [102 kB] Get:256 http://deb.debian.org/debian sid/main amd64 littler all 0.3.20-1 [16.0 kB] Get:257 http://deb.debian.org/debian sid/main amd64 r-cran-pkgkitten all 0.2.3-1 [26.7 kB] Get:258 http://deb.debian.org/debian sid/main amd64 r-cran-rcpp amd64 1.0.13-1 [2082 kB] Get:259 http://deb.debian.org/debian sid/main amd64 r-cran-rcpparmadillo amd64 14.0.0-1-1 [884 kB] Get:260 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-7 [154 kB] Get:261 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20240622-2 [136 kB] Get:262 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:263 http://deb.debian.org/debian sid/main amd64 libasan6 amd64 11.5.0-1 [2046 kB] Get:264 http://deb.debian.org/debian sid/main amd64 libtsan0 amd64 11.5.0-1 [2018 kB] Get:265 http://deb.debian.org/debian sid/main amd64 gcc-11-base amd64 11.5.0-1 [42.1 kB] Get:266 http://deb.debian.org/debian sid/main amd64 libpcre3 amd64 2:8.39-15+b1 [342 kB] Get:267 http://deb.debian.org/debian sid/main amd64 libss2 amd64 1.47.1-1 [27.6 kB] Get:268 http://deb.debian.org/debian sid/main amd64 r-cran-brio amd64 1.1.5-1 [38.3 kB] Get:269 http://deb.debian.org/debian sid/main amd64 r-cran-cachem amd64 1.0.8-1 [72.0 kB] Get:270 http://deb.debian.org/debian sid/main amd64 r-cran-processx amd64 3.8.4-1 [352 kB] Get:271 http://deb.debian.org/debian sid/main amd64 r-cran-callr all 3.7.6-1 [460 kB] Get:272 http://deb.debian.org/debian sid/main amd64 r-cran-desc all 1.4.3-1 [351 kB] Get:273 http://deb.debian.org/debian sid/main amd64 r-cran-digest amd64 0.6.36-1 [206 kB] Get:274 http://deb.debian.org/debian sid/main amd64 r-cran-evaluate all 0.24.0-1 [93.7 kB] Get:275 http://deb.debian.org/debian sid/main amd64 r-cran-formatr all 1.14-2 [152 kB] Get:276 http://deb.debian.org/debian sid/main amd64 r-cran-pkgbuild all 1.4.4-1 [213 kB] Get:277 http://deb.debian.org/debian sid/main amd64 r-cran-rprojroot all 2.0.4-1 [124 kB] Get:278 http://deb.debian.org/debian sid/main amd64 r-cran-pkgload all 1.4.0-1 [247 kB] Get:279 http://deb.debian.org/debian sid/main amd64 r-cran-prettyunits all 1.2.0-1 [162 kB] Get:280 http://deb.debian.org/debian sid/main amd64 r-cran-rstudioapi all 0.16.0-1 [292 kB] Get:281 http://deb.debian.org/debian sid/main amd64 r-cran-survival amd64 3.7-0-1 [6305 kB] Get:282 http://deb.debian.org/debian sid/main amd64 r-cran-waldo all 0.5.2-1 [120 kB] Get:283 http://deb.debian.org/debian sid/main amd64 r-cran-testthat amd64 3.2.1.1-1 [1619 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 242 MB in 4s (65.1 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40713 files and directories currently installed.) Preparing to unpack .../base-files_13.5_amd64.deb ... Unpacking base-files (13.5) over (12.4+deb12u6) ... 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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(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 ... 40739 files and directories currently installed.) Removing libcurl4:amd64 (7.88.1-10+deb12u6) ... Selecting previously unselected package libcurl4t64:amd64. (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 ... 40734 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.7-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.7-2) over (2.3.3-1+b1) ... Setting up libidn2-0:amd64 (2.3.7-2) ... Selecting previously unselected package libpsl5t64: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 ... 40734 files and directories currently installed.) Preparing to unpack .../libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... 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) ... (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 ... 40741 files and directories currently installed.) Preparing to unpack .../r-cran-sys_3.4.2-1_amd64.deb ... Unpacking r-cran-sys (3.4.2-1) over (3.4.1-1) ... Preparing to unpack .../r-cran-askpass_1.2.0-1_amd64.deb ... Unpacking r-cran-askpass (1.2.0-1) over (1.1-2) ... Preparing to unpack .../r-cran-openssl_2.2.0+dfsg-1_amd64.deb ... Unpacking r-cran-openssl (2.2.0+dfsg-1) over (2.0.5+dfsg-1) ... Preparing to unpack .../openssl_3.3.1-6_amd64.deb ... Unpacking openssl (3.3.1-6) over (3.0.13-1~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 ... 40765 files and directories currently installed.) Removing libssh2-1:amd64 (1.10.0-3+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 ... 40756 files and directories currently installed.) Preparing to unpack .../libc6_2.39-7_amd64.deb ... Unpacking libc6:amd64 (2.39-7) over (2.36-9+deb12u7) ... Setting up libc6:amd64 (2.39-7) ... (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 ... 40758 files and directories currently installed.) Preparing to unpack .../libc-bin_2.39-7_amd64.deb ... Unpacking libc-bin (2.39-7) over (2.36-9+deb12u7) ... Setting up libc-bin (2.39-7) ... dpkg: libssl3:amd64: dependency problems, but removing anyway as you requested: libkrb5-3:amd64 depends on libssl3 (>= 3.0.0). (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 ... 40758 files and directories currently installed.) Removing libssl3:amd64 (3.0.13-1~deb12u1) ... Selecting previously unselected package libssl3t64: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 ... 40746 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.3.1-6_amd64.deb ... Unpacking libssl3t64:amd64 (3.3.1-6) ... Setting up libssl3t64:amd64 (3.3.1-6) ... (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 ... 40759 files and directories currently installed.) Preparing to unpack .../zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) over (1:1.2.13.dfsg-1) ... Preparing to unpack .../zlib1g_1%3a1.3.dfsg+really1.3.1-1_amd64.deb ... Unpacking zlib1g:amd64 (1:1.3.dfsg+really1.3.1-1) over (1:1.2.13.dfsg-1) ... Setting up zlib1g:amd64 (1:1.3.dfsg+really1.3.1-1) ... Selecting previously unselected package libssh2-1t64: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 ... 40759 files and directories currently installed.) Preparing to unpack .../0-libssh2-1t64_1.11.0-7_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-7) ... Preparing to unpack .../1-libbrotli1_1.1.0-2+b4_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b4) over (1.0.9-2+b6) ... Preparing to unpack .../2-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../3-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../4-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../5-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../6-libcom-err2_1.47.1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1) over (1.47.0-2) ... Preparing to unpack .../7-libkeyutils1_1.6.3-3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-3) over (1.6.3-2) ... Preparing to unpack .../8-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 ... 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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 ... 40771 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 ... 40778 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: 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 ... 40778 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 ... 40749 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 ... 40778 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 ... 40729 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 ... 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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 ... 40781 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 ... 40781 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 ... 40785 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 ... 40779 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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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 ... 42198 files and directories currently installed.) Removing libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm6t64:amd64. (Reading database ... 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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 ... 42726 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 ... 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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 ... 42705 files and directories currently installed.) Preparing to unpack .../00-r-cran-png_0.1-8-1+b1_amd64.deb ... Unpacking r-cran-png (0.1-8-1+b1) over (0.1-8-1) ... Preparing to unpack .../01-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) over (2.37-6) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../02-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... 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Selecting previously unselected package libglib2.0-0t64: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 ... 42705 files and directories currently installed.) Preparing to unpack .../libglib2.0-0t64_2.81.1-3_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 (2.81.1-3) ... Preparing to unpack .../libatomic1_14.2.0-2_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-2) over (12.2.0-14) ... dpkg: libreadline8:amd64: dependency problems, but removing anyway as you requested: r-base-core depends on libreadline8 (>= 6.0). (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 ... 42730 files and directories currently installed.) Removing libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libreadline8t64:amd64. (Reading database ... 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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 (8.2-4) ... Preparing to unpack .../readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) over (8.2-1.3) ... Preparing to unpack .../libtinfo6_6.5-2_amd64.deb ... Unpacking libtinfo6:amd64 (6.5-2) over (6.4-4) ... Setting up libtinfo6:amd64 (6.5-2) ... dpkg: libxt6:amd64: dependency problems, but removing anyway as you requested: r-base-core depends on libxt6. (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 ... 42732 files and directories currently installed.) Preparing to unpack .../libxt6t64_1%3a1.2.1-1.2_amd64.deb ... Unpacking libxt6t64:amd64 (1:1.2.1-1.2) ... Preparing to unpack .../debianutils_5.20_amd64.deb ... Unpacking debianutils (5.20) over (5.7-0.5~deb12u1) ... Setting up debianutils (5.20) ... (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 ... 42726 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_3.10-1_amd64.deb ... Unpacking sysvinit-utils (3.10-1) over (3.06-4) ... dpkg: warning: unable to delete old directory '/lib/lsb/init-functions.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/lsb': Directory not empty dpkg: warning: unable to delete old directory '/lib/init': Directory not empty Setting up sysvinit-utils (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 ... 42726 files and directories currently installed.) Preparing to unpack .../x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) over (1:7.7+23) ... Preparing to unpack .../libice6_2%3a1.0.10-1+b1_amd64.deb ... Unpacking libice6:amd64 (2:1.0.10-1+b1) over (2:1.0.10-1) ... Preparing to unpack .../libuuid1_2.40.2-7_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-7) over (2.38.1-5+deb12u1) ... Setting up libuuid1:amd64 (2.40.2-7) ... (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 ... 42727 files and directories currently installed.) Preparing to unpack .../00-libsm6_2%3a1.2.3-1+b1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.3-1+b1) over (2:1.2.3-1) ... Preparing to unpack .../01-r-cran-ps_1.7.6-1_amd64.deb ... Unpacking r-cran-ps (1.7.6-1) over (1.7.2-1) ... Preparing to unpack .../02-r-cran-cli_3.6.2-1_amd64.deb ... Unpacking r-cran-cli (3.6.2-1) over (3.6.0-1) ... 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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 ... 42095 files and directories currently installed.) Removing libtirpc3:amd64 (1.3.3+ds-1) ... Selecting previously unselected package libtirpc3t64: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 ... 42088 files and directories currently installed.) Preparing to unpack .../libtirpc3t64_1.3.4+ds-1.3_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3) ... 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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 ... 43783 files and directories currently installed.) Preparing to unpack .../gzip_1.12-1.1_amd64.deb ... Unpacking gzip (1.12-1.1) over (1.12-1) ... dpkg: warning: old file '/bin/uncompress' is the same as several new files! (both '/usr/bin/gunzip' and '/usr/bin/uncompress') dpkg: warning: old file '/bin/gunzip' is the same as several new files! (both '/usr/bin/gunzip' and '/usr/bin/uncompress') Setting up gzip (1.12-1.1) ... (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 ... 43700 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-7_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-7) over (2.38.1-5+deb12u1) ... Setting up libsmartcols1:amd64 (2.40.2-7) ... (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 ... 43701 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-7_amd64.deb ... Unpacking util-linux (2.40.2-7) over (2.38.1-5+deb12u1) ... Setting up util-linux (2.40.2-7) ... (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 ... 43674 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.40.2-7_amd64.deb ... 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 (2.40.2-7) 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 (2.40.2-7) ... (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 ... 43714 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.5-2_all.deb ... Unpacking ncurses-base (6.5-2) over (6.4-4) ... Setting up ncurses-base (6.5-2) ... (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 ... 43712 files and directories currently installed.) Preparing to unpack .../00-libitm1_14.2.0-2_amd64.deb ... Unpacking libitm1:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../01-libasan8_14.2.0-2_amd64.deb ... Unpacking libasan8:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../02-liblsan0_14.2.0-2_amd64.deb ... Unpacking liblsan0:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../03-libubsan1_14.2.0-2_amd64.deb ... Unpacking libubsan1:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../04-libquadmath0_14.2.0-2_amd64.deb ... Unpacking libquadmath0:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../05-libstdc++-12-dev_12.4.0-2_amd64.deb ... Unpacking libstdc++-12-dev:amd64 (12.4.0-2) over (12.2.0-14) ... Preparing to unpack .../06-libgcc-12-dev_12.4.0-2_amd64.deb ... Unpacking libgcc-12-dev:amd64 (12.4.0-2) over (12.2.0-14) ... Preparing to unpack .../07-libtsan2_14.2.0-2_amd64.deb ... Unpacking libtsan2:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../08-gcc-12-base_12.4.0-2_amd64.deb ... Unpacking gcc-12-base:amd64 (12.4.0-2) over (12.2.0-14) ... Selecting previously unselected package libhwasan0:amd64. Preparing to unpack .../09-libhwasan0_14.2.0-2_amd64.deb ... Unpacking libhwasan0:amd64 (14.2.0-2) ... Selecting previously unselected package libgcc-14-dev:amd64. Preparing to unpack .../10-libgcc-14-dev_14.2.0-2_amd64.deb ... Unpacking libgcc-14-dev:amd64 (14.2.0-2) ... Selecting previously unselected package libstdc++-14-dev:amd64. Preparing to unpack .../11-libstdc++-14-dev_14.2.0-2_amd64.deb ... Unpacking libstdc++-14-dev:amd64 (14.2.0-2) ... Preparing to unpack .../12-libboost-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-dev:amd64 (1.83.0.2+b2) over (1.74.0.3) ... (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 ... 44776 files and directories currently installed.) Removing libboost1.74-dev:amd64 (1.74.0+ds1-21) ... Selecting previously unselected package libboost1.83-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 ... 29267 files and directories currently installed.) Preparing to unpack .../libboost1.83-dev_1.83.0-3.1_amd64.deb ... Unpacking libboost1.83-dev:amd64 (1.83.0-3.1) ... 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 ... (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 ... 46227 files and directories currently installed.) Removing libext2fs2:amd64 (1.47.0-2) ... Selecting previously unselected package libext2fs2t64:amd64. (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 ... (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 ... 46236 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.47.1-1_amd64.deb ... 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 .../r-cran-fs_1.6.4+dfsg-1_amd64.deb ... Unpacking r-cran-fs (1.6.4+dfsg-1) over (1.6.1+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 ... 46236 files and directories currently installed.) Removing libuv1:amd64 (1.44.2-1+deb12u1) ... Selecting previously unselected package libuv1t64: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 ... 46230 files and directories currently installed.) Preparing to unpack .../libuv1t64_1.48.0-5_amd64.deb ... Unpacking libuv1t64:amd64 (1.48.0-5) ... (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 ... 46175 files and directories currently installed.) Preparing to unpack .../00-r-bioc-biobase_2.64.0-1_amd64.deb ... Unpacking r-bioc-biobase (2.64.0-1) over (2.58.0-2) ... Preparing to unpack .../01-r-bioc-s4vectors_0.42.1+dfsg-1_amd64.deb ... Unpacking r-bioc-s4vectors (0.42.1+dfsg-1) over (0.36.1-1) ... Preparing to unpack .../02-r-bioc-iranges_2.38.1-1_amd64.deb ... Unpacking r-bioc-iranges (2.38.1-1) over (2.32.0-1) ... Preparing to unpack .../03-r-cran-dbi_1.2.3-1_all.deb ... Unpacking r-cran-dbi (1.2.3-1) over (1.1.3-1) ... Preparing to unpack .../04-r-cran-blob_1.2.4-1_all.deb ... Unpacking r-cran-blob (1.2.4-1) over (1.2.3-1) ... Preparing to unpack .../05-r-cran-cpp11_0.4.7-1_all.deb ... Unpacking r-cran-cpp11 (0.4.7-1) over (0.4.3-1) ... Preparing to unpack .../06-r-cran-rsqlite_2.3.7-2_amd64.deb ... Unpacking r-cran-rsqlite (2.3.7-2) over (2.2.20-1) ... Preparing to unpack .../07-r-cran-jsonlite_1.8.8+dfsg-1_amd64.deb ... Unpacking r-cran-jsonlite (1.8.8+dfsg-1) over (1.8.4+dfsg-1) ... Preparing to unpack .../08-r-cran-mime_0.12-2_amd64.deb ... Unpacking r-cran-mime (0.12-2) over (0.12-1+b1) ... Preparing to unpack .../09-r-cran-httr_1.4.7+dfsg-1_all.deb ... Unpacking r-cran-httr (1.4.7+dfsg-1) over (1.4.5+dfsg-1) ... Preparing to unpack .../10-r-bioc-zlibbioc_1.50.0+dfsg-1_all.deb ... Unpacking r-bioc-zlibbioc (1.50.0+dfsg-1) over (1.44.0+dfsg-1) ... 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Setting up r-cran-ps (1.7.6-1) ... Setting up r-cran-nlme (3.1.166-1) ... Setting up r-cran-farver (2.1.2-1) ... Setting up r-cran-formatr (1.14-2) ... Setting up r-cran-xml (3.99-0.17-1) ... Setting up libnsl-dev:amd64 (1.3.0-3+b2) ... Setting up r-cran-viridislite (0.4.2-2) ... Setting up r-cran-locfit (1.5-9.9-1) ... Setting up r-cran-pkgkitten (0.2.3-1) ... Setting up r-cran-rcurl (1.98-1.14+dfsg-1+b1) ... Setting up r-bioc-genomeinfodbdata (1.2.12-1) ... Setting up r-cran-littler (0.3.20-1) ... Setting up r-cran-bh (1.84.0-1) ... Setting up r-cran-fs (1.6.4+dfsg-1) ... Setting up r-cran-rcpp (1.0.13-1) ... Setting up r-cran-curl (5.2.1+dfsg-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-cran-brio (1.1.5-1) ... Setting up r-bioc-biocgenerics (0.50.0-1) ... Setting up r-cran-rlang (1.1.4-1) ... Setting up r-cran-matrixstats (1.3.0-1) ... Setting up littler (0.3.20-1) ... Setting up r-bioc-matrixgenerics (1.16.0-1) ... Setting up r-cran-sys (3.4.2-1) ... Setting up r-cran-withr (3.0.0+dfsg-1) ... Setting up r-cran-processx (3.8.4-1) ... Setting up r-cran-mime (0.12-2) ... Setting up r-cran-abind (1.4-5-2) ... Setting up r-cran-digest (0.6.36-1) ... Setting up r-cran-evaluate (0.24.0-1) ... Setting up r-cran-dbi (1.2.3-1) ... Setting up r-cran-munsell (0.5.1-1) ... Setting up r-cran-prettyunits (1.2.0-1) ... Setting up r-cran-fansi (1.0.5-1) ... Setting up r-cran-mass (7.3-61-1) ... Setting up r-cran-glue (1.7.0-1) ... Setting up r-cran-cli (3.6.2-1) ... Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... Setting up r-cran-rprojroot (2.0.4-1) ... Setting up r-bioc-zlibbioc (1.50.0+dfsg-1) ... Setting up r-cran-askpass (1.2.0-1) ... Setting up r-cran-png (0.1-8-1+b1) ... Setting up r-bioc-biobase (2.64.0-1) ... Setting up r-cran-jsonlite (1.8.8+dfsg-1) ... Setting up r-cran-rstudioapi (0.16.0-1) ... Setting up r-cran-utf8 (1.2.4-1) ... Setting up r-cran-cpp11 (0.4.7-1) ... Setting up r-bioc-s4vectors (0.42.1+dfsg-1) ... Setting up r-cran-scales (1.3.0-1) ... Setting up r-cran-gtable (0.3.5+dfsg-1) ... Setting up r-cran-matrix (1.7-0-3) ... Setting up r-cran-mgcv (1.9-1-1) ... Setting up r-cran-cachem (1.0.8-1) ... Setting up r-cran-rcpparmadillo (14.0.0-1-1) ... Setting up r-bioc-iranges (2.38.1-1) ... Setting up r-cran-vctrs (0.6.5-1) ... Setting up r-cran-pillar (1.9.0+dfsg-1) ... Setting up r-cran-openssl (2.2.0+dfsg-1) ... Setting up r-bioc-s4arrays (1.4.1+dfsg-1) ... Setting up r-bioc-biocparallel (1.38.0-2) ... Setting up r-cran-callr (3.7.6-1) ... Setting up r-cran-desc (1.4.3-1) ... Setting up r-cran-tibble (3.2.1+dfsg-2) ... Setting up r-cran-survival (3.7-0-1) ... Setting up r-cran-httr (1.4.7+dfsg-1) ... Setting up r-cran-waldo (0.5.2-1) ... Setting up r-cran-blob (1.2.4-1) ... Setting up r-bioc-xvector (0.44.0-1) ... Setting up r-cran-pkgbuild (1.4.4-1) ... Setting up r-cran-rsqlite (2.3.7-2) ... Setting up r-cran-pkgload (1.4.0-1) ... Setting up r-bioc-ucsc.utils (1.0.0+ds-2) ... Setting up r-bioc-sparsearray (1.4.8+dfsg-1) ... Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ... Setting up r-cran-testthat (3.2.1.1-1) ... Setting up r-bioc-genomeinfodb (1.40.1+dfsg-1) ... Setting up r-bioc-delayedarray (0.30.1+dfsg-1) ... Setting up r-bioc-genomicranges (1.56.1+dfsg-1) ... Setting up r-bioc-biostrings (2.72.1+dfsg-1) ... Setting up r-bioc-summarizedexperiment (1.34.0+dfsg-1) ... Setting up r-bioc-keggrest (1.44.1+dfsg-1) ... Setting up r-bioc-deseq2 (1.44.0+dfsg-1) ... Setting up r-bioc-annotationdbi (1.66.0-1) ... Setting up r-bioc-annotate (1.82.0+dfsg-1) ... Processing triggers for libc-bin (2.39-7) ... Processing triggers for debianutils (5.20) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 2m52.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-yf', 'dist-upgrade'] 2m52.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m54.6s DUMP: 7baffa791018c5f1683a3c8cfe936499 - 2m54.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m54.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-deseq2'] 2m55.0s DUMP: Package: r-bioc-deseq2 Version: 1.44.0+dfsg-1 Installed-Size: 1740 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-s4vectors (>= 0.42.1), r-bioc-iranges (>= 2.38.1), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-biocgenerics (>= 0.50.0), r-bioc-biobase (>= 2.64.0), r-bioc-biocparallel (>= 1.38.0), r-cran-matrixstats, r-cran-locfit, r-cran-ggplot2 (>= 3.4.0), r-cran-rcpp (>= 0.11.0), r-bioc-matrixgenerics (>= 1.16.0), r-cran-rcpparmadillo, libblas3 | libblas.so.3, libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 14) Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-pheatmap, r-cran-rcolorbrewer, r-bioc-tximport (>= 1.32.0), r-bioc-tximeta (>= 1.22.1), r-bioc-tximportdata (>= 1.32.0), r-cran-readr, r-cran-pbapply, r-bioc-glmgampoi (>= 1.16.0), r-cran-biocmanager Description-en: R package for RNA-Seq Differential Expression Analysis Differential gene expression analysis based on the negative binomial distribution. Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution. Description-md5: ae9e1d3c5793b8ca7b76c769e1059db8 Homepage: https://bioconductor.org/packages/DESeq2/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-deseq2/r-bioc-deseq2_1.44.0+dfsg-1_amd64.deb Size: 1283348 MD5sum: 3bf7fdfb163b8b519fda8814c981a7f5 SHA256: 501a347652789a9d1c13c34624897489d9d1f91c5e6ed82f17aa3e4de95c500c 2m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-deseq2'] 2m55.0s INFO: apt-cache knows about the following packages: r-bioc-deseq2 2m55.0s INFO: Running scripts pre_install 2m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 2m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 2m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 2m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 2m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 2m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 2m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 2m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 2m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 2m55.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 2m55.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 2m55.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 2m55.1s DUMP: r-bioc-deseq2: Installed: 1.44.0+dfsg-1 Candidate: 1.44.0+dfsg-1 Version table: *** 1.44.0+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m55.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 2m55.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2'] 2m55.9s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-deseq2 is already the newest version (1.44.0+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-cran-assertthat r-cran-ellipsis r-cran-prettyunits r-cran-rcurl Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m55.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2'] 2m55.9s INFO: Running scripts post_install 2m55.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 2m55.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 2m55.9s INFO: Running scripts post_distupgrade 2m55.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m55.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m55.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_exceptions'] 2m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_exceptions'] 2m56.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m56.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m56.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_zz_backports'] 2m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_distupgrade_zz_backports'] 2m56.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 2m57.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 2m57.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 2m58.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 2m58.8s INFO: Running scripts pre_install 2m58.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 2m58.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_database-server'] 2m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 2m58.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_exceptions'] 2m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 2m58.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_extras'] 2m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 2m58.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture'] 2m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m58.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 2m58.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 2m58.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy'] 2m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 2m59.0s DUMP: r-bioc-deseq2: Installed: 1.44.0+dfsg-1 Candidate: 1.44.0+dfsg-1 Version table: *** 1.44.0+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m59.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-cache', 'policy', 'r-bioc-deseq2'] 2m59.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2=1.44.0+dfsg-1'] 2m59.7s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-deseq2 is already the newest version (1.44.0+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-cran-assertthat r-cran-ellipsis r-cran-prettyunits r-cran-rcurl Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m59.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', '-y', 'install', 'r-bioc-deseq2=1.44.0+dfsg-1'] 2m59.7s INFO: Running scripts post_install 2m59.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 2m59.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_install_exceptions'] 2m59.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 3m1.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 3m1.4s INFO: /lib converted to /usr/lib by /usr merge 3m1.4s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 3m4.4s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', '-ac', '--ignore-obsolete'] 3m8.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', '-ac', '--ignore-obsolete'] 3m8.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 3m8.9s DUMP: 0.15.6 3m8.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 3m8.9s INFO: Running adequate version 0.15.6 now. 3m8.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'r-bioc-deseq2'] 3m9.1s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'r-bioc-deseq2'] 3m9.1s INFO: Running scripts pre_remove 3m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 3m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 3m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 3m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 3m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 3m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 3m16.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 3m16.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 3m16.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 3m16.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_exceptions'] 3m16.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/pre_remove_exceptions'] 3m16.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 3m16.9s 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 5.2.21-2.1+b1 install ok installed bsdutils bsdutils 1:2.40.2-7 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 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 14.2.0-2 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.43-8 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libasan6:amd64 libasan6 11.5.0-1 install ok installed libasan8:amd64 libasan8 14.2.0-2 install ok installed libatomic1:amd64 libatomic1 14.2.0-2 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-1 install ok installed libblas3:amd64 libblas3 3.12.0-3 install ok installed libblkid1:amd64 libblkid1 2.40.2-7 install ok installed libboost-dev:amd64 libboost-dev 1.83.0.2+b2 install ok installed libboost1.83-dev:amd64 libboost1.83-dev 1.83.0-3.1 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b4 install ok installed libbsd0:amd64 libbsd0 0.12.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5.1 install ok installed libc-bin libc-bin 2.39-7 install ok installed libc-dev-bin libc-dev-bin 2.39-7 install ok installed libc6:amd64 libc6 2.39-7 install ok installed libc6-dev:amd64 libc6-dev 2.39-7 install ok installed libcairo2:amd64 libcairo2 1.18.0-3+b1 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-1+b1 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 libcurl4t64:amd64 libcurl4t64 8.9.1-2 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 libexpat1:amd64 libexpat1 2.6.2-1 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 2.13.2+dfsg-1+b4 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 14.2.0-2 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-2 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 14.2.0-2 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 2.81.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-3 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 9.0.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libhwasan0:amd64 libhwasan0 14.2.0-2 install ok installed libice6:amd64 libice6 2:1.0.10-1+b1 install ok installed libicu67:amd64 libicu67 67.1-7 install ok installed libicu72:amd64 libicu72 72.1-5 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libitm1:amd64 libitm1 14.2.0-2 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-3 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-3 install ok installed liblapack3:amd64 liblapack3 3.12.0-3 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.57+dfsg-3+deb11u1 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-2 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-4+b1 install ok installed liblsan0:amd64 liblsan0 14.2.0-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.40.2-7 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.62.1-2 install ok installed libnsl-dev:amd64 libnsl-dev 1.3.0-3+b2 install ok installed libnsl2:amd64 libnsl2 1.3.0-3+b2 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.54.0+ds-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.54.0+ds-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.54.0+ds-1 install ok installed libpaper-utils libpaper-utils 1.1.29+b1 install ok installed libpaper1:amd64 libpaper1 1.1.29+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libpcre3:amd64 libpcre3 2:8.39-15+b1 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u1 install ok installed libperl5.38t64:amd64 libperl5.38t64 5.38.2-5 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1+b1 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.43-5 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1 install ok installed libquadmath0:amd64 libquadmath0 14.2.0-2 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-4 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b4 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-7 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-7 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.5-2+b4 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1+b4 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.4.0-0.1 install ok installed libsm6:amd64 libsm6 2:1.2.3-1+b1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-7 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.0-7 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libssl3t64:amd64 libssl3t64 3.3.1-6 install ok installed libstdc++-10-dev:amd64 libstdc++-10-dev 10.2.1-6 install ok installed libstdc++-12-dev:amd64 libstdc++-12-dev 12.4.0-2 install ok installed libstdc++-14-dev:amd64 libstdc++-14-dev 14.2.0-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-2 install ok installed libsystemd0:amd64 libsystemd0 256.5-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.14+dfsg-1 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libthai-data libthai-data 0.1.29-2 install ok installed libthai0:amd64 libthai0 0.1.29-2 install ok installed libtiff5:amd64 libtiff5 4.2.0-1+deb11u5 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed libtirpc-dev:amd64 libtirpc-dev 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3 install ok installed libtk8.6:amd64 libtk8.6 8.6.14-1 install ok installed libtsan0:amd64 libtsan0 11.5.0-1 install ok installed libtsan2:amd64 libtsan2 14.2.0-2 install ok installed libubsan1:amd64 libubsan1 14.2.0-2 install ok installed libudev1:amd64 libudev1 256.5-1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-7 install ok installed libuv1t64:amd64 libuv1t64 1.48.0-5 install ok installed libwebp6:amd64 libwebp6 0.6.1-2.1+deb11u2 install ok installed libwebp7:amd64 libwebp7 1.4.0-0.1 install ok installed libx11-6:amd64 libx11-6 2:1.8.7-1+b1 install ok installed libx11-data libx11-data 2:1.8.7-1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1+b1 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2 install ok installed libxcb1:amd64 libxcb1 1.17.0-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3+b1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxft2:amd64 libxft2 2.3.6-1+b1 install ok installed libxml2:amd64 libxml2 2.12.7+dfsg-3+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b1 install ok installed libxt6t64:amd64 libxt6t64 1:1.2.1-1.2 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed linux-libc-dev linux-libc-dev 6.10.4-1 install ok installed littler littler 0.3.20-1 install ok installed login login 1:4.16.0-2+really2.40.2-7 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed lsb-base lsb-base 11.6 install ok installed mawk mawk 1.3.4.20240622-2 install ok installed mount mount 2.40.2-7 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed openssl openssl 3.3.1-6 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl perl 5.38.2-5 install ok installed perl-base perl-base 5.38.2-5 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u1 install ok installed perl-modules-5.38 perl-modules-5.38 5.38.2-5 install ok installed r-base-core r-base-core 4.4.1-1 install ok installed r-bioc-annotate r-bioc-annotate 1.82.0+dfsg-1 install ok installed r-bioc-annotationdbi r-bioc-annotationdbi 1.66.0-1 install ok installed r-bioc-biobase r-bioc-biobase 2.64.0-1 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.50.0-1 install ok installed r-bioc-biocparallel r-bioc-biocparallel 1.38.0-2 install ok installed r-bioc-biostrings r-bioc-biostrings 2.72.1+dfsg-1 install ok installed r-bioc-delayedarray r-bioc-delayedarray 0.30.1+dfsg-1 install ok installed r-bioc-deseq2 r-bioc-deseq2 1.44.0+dfsg-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-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 1.16.0-1 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-1 install ok installed r-bioc-sparsearray r-bioc-sparsearray 1.4.8+dfsg-1 install ok installed r-bioc-summarizedexperiment r-bioc-summarizedexperiment 1.34.0+dfsg-1 install ok installed r-bioc-ucsc.utils r-bioc-ucsc.utils 1.0.0+ds-2 install ok installed r-bioc-xvector r-bioc-xvector 0.44.0-1 install ok installed r-bioc-zlibbioc r-bioc-zlibbioc 1.50.0+dfsg-1 install ok installed r-cran-abind r-cran-abind 1.4-5-2 install ok installed r-cran-askpass r-cran-askpass 1.2.0-1 install ok installed r-cran-assertthat r-cran-assertthat 0.2.1-2 install ok installed r-cran-bh r-cran-bh 1.84.0-1 install ok installed r-cran-bit r-cran-bit 4.0.5-1 install ok installed r-cran-bit64 r-cran-bit64 4.0.5-1 install ok installed r-cran-bitops r-cran-bitops 1.0-7-1 install ok installed r-cran-blob r-cran-blob 1.2.4-1 install ok installed r-cran-brio r-cran-brio 1.1.5-1 install ok installed r-cran-cachem r-cran-cachem 1.0.8-1 install ok installed r-cran-callr r-cran-callr 3.7.6-1 install ok installed r-cran-cli r-cran-cli 3.6.2-1 install ok installed r-cran-codetools r-cran-codetools 0.2-20-1 install ok installed r-cran-colorspace r-cran-colorspace 2.1-0+dfsg-1 install ok installed r-cran-cpp11 r-cran-cpp11 0.4.7-1 install ok installed r-cran-crayon r-cran-crayon 1.5.2-1 install ok installed r-cran-curl r-cran-curl 5.2.1+dfsg-1 install ok installed r-cran-dbi r-cran-dbi 1.2.3-1 install ok installed r-cran-desc r-cran-desc 1.4.3-1 install ok installed r-cran-diffobj r-cran-diffobj 0.3.5-1+b1 install ok installed r-cran-digest r-cran-digest 0.6.36-1 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 1.1.1-1 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-ggplot2 r-cran-ggplot2 3.5.1+dfsg-1 install ok installed r-cran-glue r-cran-glue 1.7.0-1 install ok installed r-cran-gtable r-cran-gtable 0.3.5+dfsg-1 install ok installed r-cran-httr r-cran-httr 1.4.7+dfsg-1 install ok installed r-cran-isoband r-cran-isoband 0.2.7-1 install ok installed r-cran-jsonlite r-cran-jsonlite 1.8.8+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-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-locfit r-cran-locfit 1.5-9.9-1 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 1.3.0-1 install ok installed r-cran-memoise r-cran-memoise 2.0.1-1 install ok installed r-cran-mgcv r-cran-mgcv 1.9-1-1 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 0.2.3-1 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-ps r-cran-ps 1.7.6-1 install ok installed r-cran-r6 r-cran-r6 2.5.1-1 install ok installed r-cran-rcolorbrewer r-cran-rcolorbrewer 1.1-3-1 install ok installed r-cran-rcpp r-cran-rcpp 1.0.13-1 install ok installed r-cran-rcpparmadillo r-cran-rcpparmadillo 14.0.0-1-1 install ok installed r-cran-rcurl r-cran-rcurl 1.98-1.14+dfsg-1+b1 install ok installed r-cran-rematch2 r-cran-rematch2 2.1.2-2 install ok installed r-cran-rlang r-cran-rlang 1.1.4-1 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-scales r-cran-scales 1.3.0-1 install ok installed r-cran-snow r-cran-snow 1:0.4.4-2 install ok installed r-cran-survival r-cran-survival 3.7-0-1 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-utf8 r-cran-utf8 1.2.4-1 install ok installed r-cran-vctrs r-cran-vctrs 0.6.5-1 install ok installed r-cran-viridislite r-cran-viridislite 0.4.2-2 install ok installed r-cran-waldo r-cran-waldo 0.5.2-1 install ok installed r-cran-withr r-cran-withr 3.0.0+dfsg-1 install ok installed r-cran-xml r-cran-xml 3.99-0.17-1 install ok installed r-cran-xtable r-cran-xtable 1:1.8-4-2 install ok installed readline-common readline-common 8.2-4 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 3.10-1 install ok installed tar tar 1.35+dfsg-3 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 2.40.2-7 install ok installed util-linux-extra util-linux-extra 2.40.2-7 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 3m16.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 3m16.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0: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', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-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', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', '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-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', '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-locfit', '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-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-ps', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', '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-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xml', 'r-cran-xtable', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-deseq2'] 3m20.3s 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 gcc-11-base libasan6 libasan8 libatomic1 libblas3 libboost-dev libboost1.83-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgcc-12-dev libgcc-14-dev libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libice6 libicu67 libicu72 libitm1 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 libldap-2.5-0 liblerc4 liblsan0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16t64 libpsl5t64 libquadmath0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libstdc++-10-dev libstdc++-12-dev libstdc++-14-dev libtcl8.6 libthai-data libthai0 libtiff5 libtiff6 libtirpc-dev libtk8.6 libtsan0 libtsan2 libubsan1 libuv1t64 libwebp6 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6t64 linux-libc-dev littler openssl r-base-core r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings r-bioc-delayedarray r-bioc-deseq2 r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc r-cran-abind 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-codetools r-cran-colorspace r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-dbi r-cran-desc r-cran-diffobj r-cran-digest r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-formatr r-cran-fs r-cran-futile.logger r-cran-futile.options r-cran-ggplot2 r-cran-glue r-cran-gtable 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-locfit 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-png r-cran-praise r-cran-prettyunits r-cran-processx r-cran-ps r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo 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-survival r-cran-sys r-cran-testthat r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-waldo r-cran-withr r-cran-xml r-cran-xtable readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 0 newly installed, 211 to remove and 0 not upgraded. After this operation, 694 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 ... 46540 files and directories currently installed.) Removing r-cran-survival (3.7-0-1) ... Removing r-bioc-deseq2 (1.44.0+dfsg-1) ... Removing r-bioc-summarizedexperiment (1.34.0+dfsg-1) ... Removing r-bioc-delayedarray (0.30.1+dfsg-1) ... Removing r-bioc-sparsearray (1.4.8+dfsg-1) ... Removing r-bioc-s4arrays (1.4.1+dfsg-1) ... Removing r-cran-abind (1.4-5-2) ... Removing r-bioc-biocparallel (1.38.0-2) ... Removing r-cran-snow (1:0.4.4-2) ... Removing r-cran-rcpparmadillo (14.0.0-1-1) ... Removing r-cran-rcpp (1.0.13-1) ... 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-cran-bh (1.84.0-1) ... Removing libboost-dev:amd64 (1.83.0.2+b2) ... Removing libboost1.83-dev:amd64 (1.83.0-3.1) ... Removing libstdc++-14-dev:amd64 (14.2.0-2) ... Removing libgcc-14-dev:amd64 (14.2.0-2) ... Removing libstdc++-12-dev:amd64 (12.4.0-2) ... Removing libgcc-12-dev:amd64 (12.4.0-2) ... Removing libasan8:amd64 (14.2.0-2) ... Removing r-cran-ggplot2 (3.5.1+dfsg-1) ... Removing r-cran-mgcv (1.9-1-1) ... Removing r-bioc-genomicranges (1.56.1+dfsg-1) ... Removing r-bioc-annotate (1.82.0+dfsg-1) ... Removing r-bioc-annotationdbi (1.66.0-1) ... Removing r-bioc-keggrest (1.44.1+dfsg-1) ... Removing r-bioc-biostrings (2.72.1+dfsg-1) ... Removing r-bioc-xvector (0.44.0-1) ... Removing r-bioc-zlibbioc (1.50.0+dfsg-1) ... Removing zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Removing libc6-dev:amd64 (2.39-7) ... Removing libc-dev-bin (2.39-7) ... Removing libcrypt-dev:amd64 (1:4.4.36-5) ... Removing libtiff5:amd64 (4.2.0-1+deb11u5) ... Removing libhwasan0:amd64 (14.2.0-2) ... Removing libicu67:amd64 (67.1-7) ... Removing r-cran-xml (3.99-0.17-1) ... Removing libxml2:amd64 (2.12.7+dfsg-3+b1) ... Removing libitm1:amd64 (14.2.0-2) ... Removing libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Removing liblsan0:amd64 (14.2.0-2) ... Removing libnsl-dev:amd64 (1.3.0-3+b2) ... Removing r-cran-png (0.1-8-1+b1) ... Removing libquadmath0:amd64 (14.2.0-2) ... Removing libtirpc-dev:amd64 (1.3.4+ds-1.3) ... Removing libtsan2:amd64 (14.2.0-2) ... Removing libubsan1:amd64 (14.2.0-2) ... Removing r-cran-testthat (3.2.1.1-1) ... Removing r-cran-pkgload (1.4.0-1) ... Removing r-cran-fs (1.6.4+dfsg-1) ... Removing libuv1t64:amd64 (1.48.0-5) ... Removing libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Removing linux-libc-dev (6.10.4-1) ... Removing littler (0.3.20-1) ... Removing r-bioc-biobase (2.64.0-1) ... Removing r-bioc-matrixgenerics (1.16.0-1) ... Removing r-cran-assertthat (0.2.1-2) ... 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-rcurl (1.98-1.14+dfsg-1+b1) ... Removing r-cran-bitops (1.0-7-1) ... Removing r-cran-blob (1.2.4-1) ... Removing r-cran-brio (1.1.5-1) ... Removing r-cran-memoise (2.0.1-1) ... Removing r-cran-cachem (1.0.8-1) ... Removing r-cran-pkgbuild (1.4.4-1) ... Removing r-cran-callr (3.7.6-1) ... Removing r-cran-waldo (0.5.2-1) ... Removing r-cran-rematch2 (2.1.2-2) ... Removing r-cran-tibble (3.2.1+dfsg-2) ... Removing r-cran-codetools (0.2-20-1) ... Removing r-cran-scales (1.3.0-1) ... Removing r-cran-munsell (0.5.1-1) ... Removing r-cran-colorspace (2.1-0+dfsg-1) ... Removing r-cran-cpp11 (0.4.7-1) ... Removing r-cran-diffobj (0.3.5-1+b1) ... Removing r-cran-crayon (1.5.2-1) ... Removing r-cran-dbi (1.2.3-1) ... Removing r-cran-desc (1.4.3-1) ... Removing r-cran-digest (0.6.36-1) ... Removing r-cran-ellipsis (0.3.2-2) ... Removing r-cran-evaluate (0.24.0-1) ... 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-fastmap (1.1.1-1) ... 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-gtable (0.3.5+dfsg-1) ... Removing r-cran-isoband (0.2.7-1) ... Removing r-cran-labeling (0.4.3-1) ... Removing r-cran-locfit (1.5-9.9-1) ... Removing r-cran-nlme (3.1.166-1) ... Removing r-cran-littler (0.3.20-1) ... Removing r-cran-magrittr (2.0.3-1) ... Removing r-cran-mass (7.3-61-1) ... Removing r-cran-matrixstats (1.3.0-1) ... Removing r-cran-pkgconfig (2.0.3-2) ... Removing r-cran-pkgkitten (0.2.3-1) ... Removing r-cran-plogr (0.2.0-3) ... Removing r-cran-praise (1.0.0-4) ... Removing r-cran-prettyunits (1.2.0-1) ... Removing r-cran-processx (3.8.4-1) ... Removing r-cran-ps (1.7.6-1) ... Removing r-cran-rcolorbrewer (1.1-3-1) ... Removing r-cran-rprojroot (2.0.4-1) ... Removing r-cran-rstudioapi (0.16.0-1) ... Removing r-cran-utf8 (1.2.4-1) ... Removing r-cran-viridislite (0.4.2-2) ... Removing r-cran-withr (3.0.0+dfsg-1) ... Removing r-cran-xtable (1:1.8-4-2) ... Removing rpcsvc-proto (1.4.3-1) ... Removing r-cran-matrix (1.7-0-3) ... Removing r-bioc-genomeinfodb (1.40.1+dfsg-1) ... Removing r-bioc-ucsc.utils (1.0.0+ds-2) ... Removing r-cran-httr (1.4.7+dfsg-1) ... Removing r-cran-curl (5.2.1+dfsg-1) ... Removing r-bioc-iranges (2.38.1-1) ... Removing r-bioc-s4vectors (0.42.1+dfsg-1) ... Removing r-bioc-biocgenerics (0.50.0-1) ... Removing r-bioc-genomeinfodbdata (1.2.12-1) ... Removing r-cran-openssl (2.2.0+dfsg-1) ... Removing r-cran-askpass (1.2.0-1) ... Removing r-cran-vctrs (0.6.5-1) ... Removing r-cran-lifecycle (1.0.4+dfsg-1) ... Removing r-cran-glue (1.7.0-1) ... Removing r-cran-jsonlite (1.8.8+dfsg-1) ... Removing r-cran-lattice (0.22-6-1) ... Removing r-cran-mime (0.12-2) ... Removing r-cran-r6 (2.5.1-1) ... Removing r-cran-rlang (1.1.4-1) ... Removing r-cran-sys (3.4.2-1) ... Removing r-cran-cli (3.6.2-1) ... Removing r-base-core (4.4.1-1) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.54.0+ds-1) ... Removing libpangoft2-1.0-0:amd64 (1.54.0+ds-1) ... Removing libpango-1.0-0:amd64 (1.54.0+ds-1) ... Removing fontconfig (2.15.0-1.1) ... Removing libtk8.6:amd64 (8.6.14-1) ... Removing libxft2:amd64 (2.3.6-1+b1) ... Removing libcairo2:amd64 (1.18.0-3+b1) ... 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 libharfbuzz0b:amd64 (9.0.0-1) ... Removing libglib2.0-0t64:amd64 (2.81.1-3) ... Removing libatomic1:amd64 (14.2.0-2) ... Removing liblapack3:amd64 (3.12.0-3) ... Removing libblas3:amd64 (3.12.0-3) ... Removing libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Removing libcurl4t64:amd64 (8.9.1-2) ... Removing libbrotli1:amd64 (1.1.0-2+b4) ... Removing libthai0:amd64 (0.1.29-2) ... Removing libdatrie1:amd64 (0.2.13-3) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.21-1) ... Removing libexpat1:amd64 (2.6.2-1) ... Removing libfribidi0:amd64 (1.0.15-1) ... Removing libgfortran5:amd64 (14.2.0-2) ... Removing libgomp1:amd64 (14.2.0-2) ... 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-2) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing libnghttp2-14:amd64 (1.62.1-2) ... 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 libpng16-16t64:amd64 (1.6.43-5) ... Removing libpsl5t64:amd64 (0.21.2-1.1) ... Removing libreadline8t64:amd64 (8.2-4) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-7) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-7) ... 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 (8.6.14+dfsg-1) ... 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 (3.3.1-6) ... Removing readline-common (8.2-4) ... 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 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 (2.39-7) ... 3m20.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0: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', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-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', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', '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-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', '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-locfit', '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-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-ps', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', '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-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xml', 'r-cran-xtable', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-deseq2'] 3m20.3s INFO: Running scripts post_remove 3m20.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_remove_exceptions'] 3m20.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_remove_exceptions'] 3m20.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0: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', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-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', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', '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-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', '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-locfit', '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-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-ps', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', '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-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xml', 'r-cran-xtable', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 3m21.0s DUMP: (Reading database ... 9412 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) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: while removing fonts-dejavu-mono, directory '/usr/share/fonts/truetype/dejavu' not empty so not removed dpkg: warning: while removing fonts-dejavu-mono, directory '/etc/fonts' not empty so not removed dpkg: warning: ignoring request to remove gcc-11-base which isn't installed dpkg: warning: ignoring request to remove libasan6 which isn't installed dpkg: warning: ignoring request to remove libasan8 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libboost-dev which isn't installed dpkg: warning: ignoring request to remove libboost1.83-dev which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed Purging configuration files for libcrypt-dev:amd64 (1:4.4.36-5) ... dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgcc-10-dev which isn't installed dpkg: warning: ignoring request to remove libgcc-12-dev which isn't installed dpkg: warning: ignoring request to remove libgcc-14-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.81.1-3) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhwasan0 which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libicu67 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl-dev which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpaper-utils which isn't installed Purging configuration files for libpaper1:amd64 (1.1.29+b1) ... dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-4) ... dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsm6 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libstdc++-10-dev which isn't installed dpkg: warning: ignoring request to remove libstdc++-12-dev which isn't installed dpkg: warning: ignoring request to remove libstdc++-14-dev which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed dpkg: warning: ignoring request to remove libtirpc-dev which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libtsan2 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove libuv1t64 which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libxt6t64 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove littler which isn't installed Purging configuration files for openssl (3.3.1-6) ... Purging configuration files for r-base-core (4.4.1-1) ... dpkg: warning: ignoring request to remove r-bioc-annotate which isn't installed dpkg: warning: ignoring request to remove r-bioc-annotationdbi which isn't installed dpkg: warning: ignoring request to remove r-bioc-biobase which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocparallel which isn't installed dpkg: warning: ignoring request to remove r-bioc-biostrings which isn't installed dpkg: warning: ignoring request to remove r-bioc-delayedarray which isn't installed dpkg: warning: ignoring request to remove r-bioc-genomeinfodb which isn't installed dpkg: warning: ignoring request to remove r-bioc-genomeinfodbdata which isn't installed dpkg: warning: ignoring request to remove 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-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-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-bh which isn't installed dpkg: warning: ignoring request to remove r-cran-bit which isn't installed dpkg: warning: ignoring request to remove r-cran-bit64 which isn't installed dpkg: warning: ignoring request to remove r-cran-bitops which isn't installed dpkg: warning: ignoring request to remove r-cran-blob which isn't installed dpkg: warning: ignoring request to remove r-cran-brio which isn't installed dpkg: warning: ignoring request to remove r-cran-cachem which isn't installed dpkg: warning: ignoring request to remove r-cran-callr which isn't installed dpkg: warning: ignoring request to remove r-cran-cli which isn't installed dpkg: warning: ignoring request to remove r-cran-codetools which isn't installed dpkg: warning: ignoring request to remove r-cran-colorspace which isn't installed dpkg: warning: ignoring request to remove r-cran-cpp11 which isn't installed dpkg: warning: ignoring request to remove r-cran-crayon which isn't installed dpkg: warning: ignoring request to remove r-cran-curl which isn't installed dpkg: warning: ignoring request to remove r-cran-dbi which isn't installed dpkg: warning: ignoring request to remove r-cran-desc which isn't installed dpkg: warning: ignoring request to remove r-cran-diffobj which isn't installed dpkg: warning: ignoring request to remove r-cran-digest which isn't installed dpkg: warning: ignoring request to remove r-cran-ellipsis which isn't installed dpkg: warning: ignoring request to remove r-cran-evaluate which isn't installed dpkg: warning: ignoring request to remove r-cran-fansi which isn't installed dpkg: warning: ignoring request to remove r-cran-farver which isn't installed dpkg: warning: ignoring request to remove r-cran-fastmap 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-ggplot2 which isn't installed dpkg: warning: ignoring request to remove r-cran-glue which isn't installed dpkg: warning: ignoring request to remove r-cran-gtable which isn't installed dpkg: warning: ignoring request to remove r-cran-httr 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-jsonlite 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-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-locfit 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-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-ps which isn't installed dpkg: warning: ignoring request to remove r-cran-r6 which isn't installed dpkg: warning: ignoring request to remove r-cran-rcolorbrewer which isn't installed dpkg: warning: ignoring request to remove r-cran-rcpp which isn't installed dpkg: warning: ignoring request to remove r-cran-rcpparmadillo 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-rlang 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-scales 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-survival which isn't installed dpkg: warning: ignoring request to remove r-cran-sys which isn't installed dpkg: warning: ignoring request to remove r-cran-testthat which isn't installed dpkg: warning: ignoring request to remove r-cran-tibble which isn't installed dpkg: warning: ignoring request to remove r-cran-utf8 which isn't installed dpkg: warning: ignoring request to remove r-cran-vctrs which isn't installed dpkg: warning: ignoring request to remove r-cran-viridislite which isn't installed dpkg: warning: ignoring request to remove r-cran-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-xml which isn't installed dpkg: warning: ignoring request to remove r-cran-xtable which isn't installed Purging configuration files for readline-common (8.2-4) ... dpkg: warning: ignoring request to remove rpcsvc-proto which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for ucf (3.0043+nmu1) ... Purging configuration files for unzip (6.0-28) ... Purging configuration files for x11-common (1:7.7+23.1) ... dpkg: warning: 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 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0: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', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-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', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libuv1t64:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-annotate', 'r-bioc-annotationdbi', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-delayedarray', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-keggrest', 'r-bioc-matrixgenerics', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', '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-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-dbi', 'r-cran-desc', 'r-cran-diffobj', 'r-cran-digest', 'r-cran-ellipsis', 'r-cran-evaluate', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastmap', 'r-cran-formatr', 'r-cran-fs', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gtable', '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-locfit', '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-png', 'r-cran-praise', 'r-cran-prettyunits', 'r-cran-processx', 'r-cran-ps', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcpparmadillo', '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-survival', 'r-cran-sys', 'r-cran-testthat', 'r-cran-tibble', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-viridislite', 'r-cran-waldo', 'r-cran-withr', 'r-cran-xml', 'r-cran-xtable', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--purge', 'r-bioc-deseq2'] 3m21.0s DUMP: dpkg: warning: ignoring request to remove r-bioc-deseq2 which isn't installed 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--purge', 'r-bioc-deseq2'] 3m21.0s INFO: Running scripts post_purge 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_purge_exceptions'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_purge_exceptions'] 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--purge', '--pending'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--purge', '--pending'] 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--remove', '--pending'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg', '--remove', '--pending'] 3m21.0s INFO: Running scripts post_test 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_test_exceptions'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'tmp/scripts/post_test_exceptions'] 3m21.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 3m21.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 3m21.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg-divert', '--list'] 3m21.6s 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 3m21.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'dpkg-divert', '--list'] 3m21.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'clean'] 3m21.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6', 'apt-get', 'clean'] 3m21.7s DEBUG: Recording chroot state 3m22.3s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fontconfig-config, fonts-dejavu-mono, fonts-dejavu-core /etc/fonts/conf.d/ owned by: 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-dejavu-mono, fonts-dejavu-core /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: 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 3m22.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/shm'] 3m22.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/shm'] 3m22.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/console'] 3m22.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/console'] 3m22.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/ptmx'] 3m22.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/ptmx'] 3m22.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/pts'] 3m22.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/dev/pts'] 3m22.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/proc'] 3m22.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6/proc'] 3m22.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 3m23.0s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdnpk9mu6'] 3m23.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpdnpk9mu6 3m23.0s INFO: PASS: Upgrading between Debian distributions. 3m23.0s INFO: PASS: All tests. 3m23.0s INFO: piuparts run ends. ret=0 End: 2024-08-18 07:02:56 GMT