Start: 2024-08-23 16:26:40 GMT [stable] Package: r-bioc-bsseq Version: 1.34.0+dfsg-4 Installed-Size: 3478 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.2.2.20221110-1), r-api-4.0, r-api-bioc-3.16, r-bioc-biocgenerics, r-bioc-genomicranges (>= 1.41.5), r-bioc-summarizedexperiment (>= 1.19.5), r-bioc-iranges (>= 2.23.9), r-bioc-genomeinfodb, r-cran-scales, r-bioc-biobase, r-cran-locfit, r-cran-gtools, r-cran-data.table (>= 1.11.8), r-bioc-s4vectors (>= 0.27.12), r-cran-r.utils (>= 2.0.0), r-bioc-delayedmatrixstats (>= 1.5.2), r-cran-permute, r-bioc-limma, r-bioc-delayedarray (>= 0.15.16), r-cran-rcpp, r-bioc-biocparallel, r-bioc-bsgenome, r-bioc-biostrings, r-bioc-hdf5array (>= 1.19.11), r-bioc-rhdf5, r-bioc-beachmat, libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 11) Suggests: r-cran-testthat, r-bioc-biocstyle, r-cran-rmarkdown, r-cran-knitr, r-cran-matrix, r-cran-doparallel, r-bioc-rtracklayer, r-bioc-beachmat (>= 1.5.2), r-cran-batchjobs Description: Bioconductor analyze, manage and store bisulfite sequencing data Homepage: https://bioconductor.org/packages/bsseq/ Description-md5: 180b48f012fc46f936094bed692669d0 Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bsseq/r-bioc-bsseq_1.34.0+dfsg-4_amd64.deb Size: 2951156 MD5sum: c7773ec5a4530d12c09e5255e9738a4c SHA256: 1f3153adc173a5792c79e7ed061b0b017245f9d29404dcc4482f9836dc90c16e [testing] [sid] Package: r-bioc-bsseq Version: 1.40.0+dfsg-1 Installed-Size: 3496 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-biocgenerics (>= 0.50.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-iranges (>= 2.38.1), r-bioc-genomeinfodb (>= 1.40.1), r-cran-scales, r-bioc-biobase (>= 2.64.0), r-cran-locfit, r-cran-gtools, r-cran-data.table (>= 1.11.8), r-bioc-s4vectors (>= 0.42.1), r-cran-r.utils (>= 2.0.0), r-bioc-delayedmatrixstats (>= 1.26.0), r-cran-permute, r-bioc-limma (>= 3.60.3), r-bioc-delayedarray (>= 0.30.1), r-cran-rcpp, r-bioc-biocparallel (>= 1.38.0), r-bioc-bsgenome (>= 1.72.0), r-bioc-biostrings (>= 2.72.1), r-bioc-hdf5array (>= 1.32.0), r-bioc-rhdf5 (>= 2.48.0), r-bioc-beachmat (>= 2.20.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1) Suggests: r-cran-testthat, r-bioc-biocstyle (>= 2.32.1), r-cran-rmarkdown, r-cran-knitr, r-cran-matrix, r-cran-doparallel, r-bioc-rtracklayer (>= 1.64.0), r-cran-batchtools Description: Bioconductor analyze, manage and store bisulfite sequencing data Homepage: https://bioconductor.org/packages/bsseq/ Description-md5: 180b48f012fc46f936094bed692669d0 Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bsseq/r-bioc-bsseq_1.40.0+dfsg-1_amd64.deb Size: 2965072 MD5sum: 6dbd56fe0f6b86495c03717db778e173 SHA256: d06114c7dd4f0ca385f30e7cb1f04aef7749d244612d24c47e15ddbeac2b3e03 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-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-bsseq=1.40.0+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 1.4.4~202408201135~1.4.3-10-g39df1906 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-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-bsseq=1.40.0+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/tmpch6uqx8p 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpch6uqx8p 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/proc'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/pts'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/pts'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/ptmx'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/ptmx'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/console'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/console'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/shm'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/shm'] 0m0.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m0.4s DEBUG: Created policy-rc.d and chmodded it. 0m0.4s DEBUG: Created resolv.conf. 0m0.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpch6uqx8p/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'update'] 0m1.7s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'update'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.7s DUMP: 913e17be84ed63a3110ce3137c1d003a - 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.7s INFO: Running scripts post_setup 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_dummy_users'] 0m3.9s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_dummy_users'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_forbid_home'] 0m4.0s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_forbid_home'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.0s 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' 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_minimize'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_minimize'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_zz_backports'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_setup_zz_backports'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.0s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u6 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u7 install ok installed libc6:amd64 libc6 2.36-9+deb12u7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.26-1~deb12u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.26-1~deb12u2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.0s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat 0m4.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 0m4.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 0m4.4s INFO: Running scripts is_testable 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s INFO: Running scripts pre_test 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_test_root_password'] 0m4.5s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_test_root_password'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bsseq'] 0m4.8s DUMP: Package: r-bioc-bsseq Version: 1.34.0+dfsg-4 Installed-Size: 3478 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.2.2.20221110-1), r-api-4.0, r-api-bioc-3.16, r-bioc-biocgenerics, r-bioc-genomicranges (>= 1.41.5), r-bioc-summarizedexperiment (>= 1.19.5), r-bioc-iranges (>= 2.23.9), r-bioc-genomeinfodb, r-cran-scales, r-bioc-biobase, r-cran-locfit, r-cran-gtools, r-cran-data.table (>= 1.11.8), r-bioc-s4vectors (>= 0.27.12), r-cran-r.utils (>= 2.0.0), r-bioc-delayedmatrixstats (>= 1.5.2), r-cran-permute, r-bioc-limma, r-bioc-delayedarray (>= 0.15.16), r-cran-rcpp, r-bioc-biocparallel, r-bioc-bsgenome, r-bioc-biostrings, r-bioc-hdf5array (>= 1.19.11), r-bioc-rhdf5, r-bioc-beachmat, libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 11) Suggests: r-cran-testthat, r-bioc-biocstyle, r-cran-rmarkdown, r-cran-knitr, r-cran-matrix, r-cran-doparallel, r-bioc-rtracklayer, r-bioc-beachmat (>= 1.5.2), r-cran-batchjobs Description-en: Bioconductor analyze, manage and store bisulfite sequencing data A collection of tools for analyzing and visualizing bisulfite sequencing data. Description-md5: 180b48f012fc46f936094bed692669d0 Homepage: https://bioconductor.org/packages/bsseq/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bsseq/r-bioc-bsseq_1.34.0+dfsg-4_amd64.deb Size: 2951156 MD5sum: c7773ec5a4530d12c09e5255e9738a4c SHA256: 1f3153adc173a5792c79e7ed061b0b017245f9d29404dcc4482f9836dc90c16e 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bsseq'] 0m4.8s INFO: apt-cache knows about the following packages: r-bioc-bsseq 0m4.8s INFO: Running scripts pre_install 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_database-server'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_database-server'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_exceptions'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_exceptions'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_extras'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_extras'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy'] 0m4.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy', 'r-bioc-bsseq'] 0m4.9s DUMP: r-bioc-bsseq: Installed: (none) Candidate: 1.34.0+dfsg-4 Version table: 1.34.0+dfsg-4 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy', 'r-bioc-bsseq'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-y', 'install', 'r-bioc-bsseq'] 0m43.5s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core hdf5-helpers libaec-dev libaec0 libasan8 libatomic1 libblas3 libblosc1 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libcurl4-openssl-dev libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libice6 libicu72 libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libnghttp2-14 libnsl-dev libnsl2 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsnappy1v5 libssh2-1 libssl-dev libssl3 libstdc++-12-dev libsz2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc-dev libtirpc3 libtk8.6 libtsan2 libubsan1 libwebp7 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-beachmat r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicranges r-bioc-hdf5array r-bioc-iranges r-bioc-limma r-bioc-matrixgenerics r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-sparsematrixstats r-bioc-summarizedexperiment r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-cli r-cran-codetools r-cran-colorspace r-cran-cpp11 r-cran-crayon r-cran-data.table r-cran-farver r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-glue r-cran-gtools r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-matrix r-cran-matrixstats r-cran-munsell r-cran-permute r-cran-pkgkitten r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-scales r-cran-snow r-cran-viridislite r-cran-xml r-cran-yaml readline-common rpcsvc-proto 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 libcurl4-doc libidn-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config low-memory-monitor krb5-doc krb5-user libhdf5-doc libssl-doc libstdc++-12-doc tcl8.6 tk8.6 elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-cran-testthat r-bioc-biocstyle r-cran-knitr r-cran-rmarkdown r-cran-rcmdcheck r-bioc-all r-cran-runit r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-foreach r-cran-batchjobs r-cran-bbmisc r-cran-doparallel r-cran-rmpi r-bioc-variantannotation r-bioc-shortread r-cran-batchtools r-bioc-genomicfeatures r-cran-biocmanager r-bioc-genefilter r-cran-lobstr r-cran-covr r-cran-profmem r-bioc-edger r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq r-bioc-keggrest r-cran-digest r-bioc-experimenthub r-bioc-singlecellexperiment r-cran-biasedurn r-cran-ellipse r-bioc-go.db r-cran-gplots r-cran-mass r-bioc-org.hs.eg.db r-cran-statmod r-cran-bit64 r-cran-dplyr r-cran-ggplot2 r-cran-mockery r-cran-tinytest r-bioc-graph r-cran-bench r-cran-jsonlite r-cran-callr r-cran-htmltools r-cran-htmlwidgets r-cran-processx r-cran-ps r-cran-rprojroot r-cran-rstudioapi r-cran-tibble r-cran-whoami r-cran-kernsmooth r-cran-kernlab r-cran-mvtnorm r-cran-vcd r-cran-shiny r-cran-shinyjs r-cran-png r-cran-jpeg r-cran-viridis r-cran-desc r-cran-vctrs r-cran-withr r-cran-bit r-cran-curl r-cran-xts r-cran-nanotime r-cran-zoo r-cran-dbi r-cran-forcats r-cran-magrittr r-cran-rsqlite r-cran-stringr r-cran-waldo r-cran-lintr r-cran-tidyverse r-cran-getopt r-cran-interp r-cran-gam r-cran-base64enc r-cran-markdown r-cran-r.devices r-cran-r.rsp r-cran-vegan r-cran-bookdown r-cran-sessioninfo r-cran-inline r-cran-fs r-cran-pillar r-cran-usethis r-cran-dichromat r-cran-rlecuyer readline-doc Recommended packages: manpages manpages-dev libc-devtools libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libldap-common publicsuffix libsasl2-modules r-recommended r-base-dev r-doc-html r-bioc-biovizbase r-cran-knitr r-cran-rmarkdown r-bioc-biocstyle r-cran-testthat r-cran-withr r-cran-mockery r-cran-tibble r-cran-decor r-cran-brio r-cran-progress r-cran-testit r-cran-survival r-cran-vctrs r-cran-runit r-cran-bit64 r-cran-hms r-cran-stringi libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core hdf5-helpers libaec-dev libaec0 libasan8 libatomic1 libblas3 libblosc1 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libcurl4-openssl-dev libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libice6 libicu72 libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libnghttp2-14 libnsl-dev libnsl2 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsnappy1v5 libssh2-1 libssl-dev libssl3 libstdc++-12-dev libsz2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc-dev libtirpc3 libtk8.6 libtsan2 libubsan1 libwebp7 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-beachmat r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-bsgenome r-bioc-bsseq r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicranges r-bioc-hdf5array r-bioc-iranges r-bioc-limma r-bioc-matrixgenerics r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-sparsematrixstats r-bioc-summarizedexperiment r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-cli r-cran-codetools r-cran-colorspace r-cran-cpp11 r-cran-crayon r-cran-data.table r-cran-farver r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-glue r-cran-gtools r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-matrix r-cran-matrixstats r-cran-munsell r-cran-permute r-cran-pkgkitten r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-scales r-cran-snow r-cran-viridislite r-cran-xml r-cran-yaml readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 185 newly installed, 0 to remove and 0 not upgraded. Need to get 198 MB of archives. After this operation, 558 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.13-1~deb12u1 [2022 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.13-1~deb12u1 [1418 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5+deb12u3 [398 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 hdf5-helpers amd64 1.10.8+repack1-1 [27.9 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libaec0 amd64 1.0.6-1+b1 [21.1 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libsz2 amd64 1.0.6-1+b1 [7804 B] Get:18 http://deb.debian.org/debian bookworm/main amd64 libaec-dev amd64 1.0.6-1+b1 [19.9 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libasan8 amd64 12.2.0-14 [2195 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libatomic1 amd64 12.2.0-14 [9328 B] Get:21 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libsnappy1v5 amd64 1.1.9-3 [26.0 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libblosc1 amd64 1.21.3+ds-1 [49.3 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libitm1 amd64 12.2.0-14 [26.1 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 liblsan0 amd64 12.2.0-14 [969 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libtsan2 amd64 12.2.0-14 [2196 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libubsan1 amd64 12.2.0-14 [883 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 libgcc-12-dev amd64 12.2.0-14 [2437 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 libc-dev-bin amd64 2.36-9+deb12u7 [45.8 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 linux-libc-dev amd64 6.1.94-1 [1994 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libcrypt-dev amd64 1:4.4.33-2 [118 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:37 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libc6-dev amd64 2.36-9+deb12u7 [1899 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 libstdc++-12-dev amd64 12.2.0-14 [2046 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21 [9508 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get:49 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-10+deb12u6 [390 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libcurl4-openssl-dev amd64 7.88.1-10+deb12u6 [491 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2+deb12u3 [1400 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 libhdf5-103-1 amd64 1.10.8+repack1-1 [1237 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libhdf5-cpp-103-1 amd64 1.10.8+repack1-1 [128 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libhdf5-fortran-102 amd64 1.10.8+repack1-1 [93.3 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libhdf5-hl-100 amd64 1.10.8+repack1-1 [67.8 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libhdf5-hl-fortran-100 amd64 1.10.8+repack1-1 [44.5 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libhdf5-hl-cpp-100 amd64 1.10.8+repack1-1 [25.5 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-2 [290 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libjpeg-dev amd64 1:2.1.5-2 [71.8 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libssl-dev amd64 3.0.13-1~deb12u1 [2435 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libhdf5-dev amd64 1.10.8+repack1-1 [2615 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 libpaper-utils amd64 1.1.29 [8868 B] Get:102 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [1035 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libtk8.6 amd64 8.6.13-2 [781 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1.1 [186 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 zip amd64 3.0-13 [230 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-28 [166 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 r-base-core amd64 4.2.2.20221110-2 [26.0 MB] Get:116 http://deb.debian.org/debian bookworm/main amd64 r-cran-littler amd64 0.3.17-1 [96.3 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 littler all 0.3.17-1 [14.4 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocgenerics all 0.44.0-2 [600 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 r-cran-lattice amd64 0.20-45-3 [1177 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrix amd64 1.5-3-1 [3822 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrixstats amd64 0.63.0-1 [470 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 r-bioc-matrixgenerics all 1.10.0-1 [302 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 r-bioc-s4vectors amd64 0.36.1-1 [2026 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 r-bioc-iranges amd64 2.32.0-1 [2222 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 r-bioc-delayedarray amd64 0.24.0+dfsg-1 [1937 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgkitten all 0.2.2-2 [27.0 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpp amd64 1.0.10-1 [2059 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 r-bioc-beachmat amd64 2.14.0+ds-1 [188 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biobase amd64 2.58.0-2 [2112 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocio all 1.8.0+dfsg-1 [201 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 r-cran-formatr all 1.14-1 [152 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 r-cran-codetools all 0.2-19-1 [90.9 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 r-cran-bh all 1.74.0-2 [5524 B] Get:138 http://deb.debian.org/debian bookworm/main amd64 r-cran-cpp11 all 0.4.3-1 [223 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocparallel amd64 1.32.5-1 [1337 kB] Get:140 http://deb.debian.org/debian bookworm/main amd64 r-bioc-zlibbioc all 1.44.0+dfsg-1 [9200 B] Get:141 http://deb.debian.org/debian bookworm/main amd64 r-bioc-xvector amd64 0.38.0-1 [618 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 r-cran-bitops amd64 1.0-7-1 [30.2 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcurl amd64 1.98-1.10+dfsg-1 [783 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodbdata all 1.2.9-1 [11.7 MB] Get:145 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomeinfodb all 1.34.9-1 [3938 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biostrings amd64 2.66.0-1 [13.8 MB] Get:148 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicranges amd64 1.50.2+dfsg-1 [1796 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 r-cran-xml amd64 3.99-0.13-1 [1717 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhtslib amd64 2.0.0+dfsg-1 [1287 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rsamtools amd64 2.14.0-1 [3755 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 r-bioc-summarizedexperiment all 1.28.0+dfsg-1 [2018 kB] Get:153 http://deb.debian.org/debian bookworm/main amd64 r-bioc-genomicalignments amd64 1.34.0-1 [2112 kB] Get:154 http://deb.debian.org/debian bookworm/main amd64 r-cran-rjson amd64 0.2.21-1 [139 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 r-cran-yaml amd64 2.3.7-1 [104 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 r-cran-restfulr amd64 0.0.15-1 [382 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rtracklayer amd64 1.58.0-1 [5104 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 r-bioc-bsgenome all 1.66.3-1 [6997 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 r-cran-farver amd64 2.1.1-1 [1404 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 r-cran-labeling all 0.4.2-1 [62.7 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 r-cran-cli amd64 3.6.0-1 [1287 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 r-cran-glue amd64 1.6.2-1 [152 kB] Get:163 http://deb.debian.org/debian bookworm/main amd64 r-cran-rlang amd64 1.0.6-1 [1618 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 r-cran-lifecycle all 1.0.3+dfsg-1 [109 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 r-cran-colorspace amd64 2.1-0+dfsg-1 [1692 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 r-cran-munsell all 0.5.0-2 [236 kB] Get:167 http://deb.debian.org/debian bookworm/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcolorbrewer all 1.1-3-1 [54.7 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 r-cran-viridislite all 0.4.1-1 [1299 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 r-cran-scales all 1.2.1-1 [614 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 r-cran-locfit amd64 1.5-9.7-1 [507 kB] Get:172 http://deb.debian.org/debian bookworm/main amd64 r-cran-gtools amd64 3.9.4-1 [359 kB] Get:173 http://deb.debian.org/debian bookworm/main amd64 r-cran-data.table amd64 1.14.8+dfsg-1 [1683 kB] Get:174 http://deb.debian.org/debian bookworm/main amd64 r-cran-r.methodss3 all 1.8.2-1 [84.5 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 r-cran-r.oo all 1.25.0-1 [959 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 r-cran-r.utils all 2.12.2-1 [1391 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 r-bioc-sparsematrixstats amd64 1.10.0+dfsg-1 [859 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 r-bioc-delayedmatrixstats all 1.20.0+ds-1 [430 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 r-cran-permute all 0.9-7-1 [225 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 r-bioc-limma amd64 3.54.1+dfsg-1 [1768 kB] Get:181 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhdf5lib amd64 1.20.0+dfsg-1 [102 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhdf5filters amd64 1.10.0+dfsg-1 [120 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 r-bioc-rhdf5 amd64 2.42.0+dfsg-1 [792 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 r-bioc-hdf5array amd64 1.26.0-1 [8748 kB] Get:185 http://deb.debian.org/debian bookworm/main amd64 r-bioc-bsseq amd64 1.34.0+dfsg-4 [2951 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 198 MB in 7s (28.4 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 ... 6093 files and directories currently installed.) Preparing to unpack .../000-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../002-libssl3_3.0.13-1~deb12u1_amd64.deb ... Unpacking libssl3:amd64 (3.0.13-1~deb12u1) ... Selecting previously unselected package openssl. Preparing to unpack .../003-openssl_3.0.13-1~deb12u1_amd64.deb ... Unpacking openssl (3.0.13-1~deb12u1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package ucf. Preparing to unpack .../005-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../006-libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../007-libbrotli1_1.0.9-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b6) ... Selecting previously unselected package libpng16-16:amd64. 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Setting up libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libhdf5-hl-100:amd64 (1.10.8+repack1-1) ... Setting up libxft2:amd64 (2.3.6-1) ... Setting up libtk8.6:amd64 (8.6.13-2) ... Setting up libhdf5-hl-cpp-100:amd64 (1.10.8+repack1-1) ... Setting up r-base-core (4.2.2.20221110-2) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.2-1) ... Setting up r-cran-labeling (0.4.2-1) ... Setting up libhdf5-fortran-102:amd64 (1.10.8+repack1-1) ... Setting up r-cran-futile.options (1.0.1-3) ... Setting up r-cran-lattice (0.20-45-3) ... Setting up r-cran-farver (2.1.1-1) ... Setting up r-cran-formatr (1.14-1) ... Setting up r-cran-xml (3.99-0.13-1) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up r-cran-viridislite (0.4.1-1) ... Setting up r-cran-locfit (1.5-9.7-1) ... Setting up libhdf5-hl-fortran-100:amd64 (1.10.8+repack1-1) ... Setting up libc6-dev:amd64 (2.36-9+deb12u7) ... Setting up r-cran-r6 (2.5.1-1) ... Setting up r-cran-pkgkitten (0.2.2-2) ... Setting up r-bioc-genomeinfodbdata (1.2.9-1) ... Setting up r-cran-littler (0.3.17-1) ... Setting up r-cran-permute (0.9-7-1) ... Setting up r-cran-rcpp (1.0.10-1) ... Setting up r-cran-codetools (0.2-19-1) ... Setting up r-bioc-biocgenerics (0.44.0-2) ... Setting up r-cran-rlang (1.0.6-1) ... Setting up r-cran-matrixstats (0.63.0-1) ... Setting up littler (0.3.17-1) ... Setting up r-bioc-matrixgenerics (1.10.0-1) ... Setting up libstdc++-12-dev:amd64 (12.2.0-14) ... Setting up r-cran-yaml (2.3.7-1) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up r-cran-gtools (3.9.4-1) ... Setting up r-cran-data.table (1.14.8+dfsg-1) ... Setting up r-cran-glue (1.6.2-1) ... Setting up r-cran-cli (3.6.0-1) ... Setting up r-cran-lifecycle (1.0.3+dfsg-1) ... Setting up r-cran-bitops (1.0-7-1) ... Setting up r-cran-r.methodss3 (1.8.2-1) ... Setting up r-bioc-biobase (2.58.0-2) ... Setting up r-cran-colorspace (2.1-0+dfsg-1) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-2) ... Setting up r-cran-cpp11 (0.4.3-1) ... Setting up r-cran-rcolorbrewer (1.1-3-1) ... Setting up r-bioc-s4vectors (0.36.1-1) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up r-bioc-limma (3.54.1+dfsg-1) ... Setting up r-cran-matrix (1.5-3-1) ... Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Setting up r-bioc-iranges (2.32.0-1) ... Setting up r-cran-rjson (0.2.21-1) ... Setting up r-cran-rcurl (1.98-1.10+dfsg-1) ... Setting up r-cran-restfulr (0.0.15-1) ... Setting up r-bioc-sparsematrixstats (1.10.0+dfsg-1) ... Setting up r-bioc-delayedarray (0.24.0+dfsg-1) ... Setting up libboost1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up r-cran-munsell (0.5.0-2) ... Setting up libjpeg-dev:amd64 (1:2.1.5-2) ... Setting up r-bioc-delayedmatrixstats (1.20.0+ds-1) ... Setting up r-bioc-biocio (1.8.0+dfsg-1) ... Setting up r-cran-r.oo (1.25.0-1) ... Setting up r-bioc-zlibbioc (1.44.0+dfsg-1) ... Setting up r-bioc-genomeinfodb (1.34.9-1) ... Setting up libhdf5-dev (1.10.8+repack1-1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up r-cran-scales (1.2.1-1) ... Setting up r-bioc-beachmat (2.14.0+ds-1) ... Setting up r-bioc-xvector (0.38.0-1) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up r-cran-bh (1.74.0-2) ... Setting up r-cran-r.utils (2.12.2-1) ... Setting up r-bioc-biocparallel (1.32.5-1) ... Setting up r-bioc-genomicranges (1.50.2+dfsg-1) ... Setting up r-bioc-rhtslib (2.0.0+dfsg-1) ... Setting up r-bioc-biostrings (2.66.0-1) ... Setting up r-bioc-rhdf5lib (1.20.0+dfsg-1) ... Setting up r-bioc-rhdf5filters (1.10.0+dfsg-1) ... Setting up r-bioc-rsamtools (2.14.0-1) ... Setting up r-bioc-summarizedexperiment (1.28.0+dfsg-1) ... Setting up r-bioc-rhdf5 (2.42.0+dfsg-1) ... Setting up r-bioc-genomicalignments (1.34.0-1) ... Setting up r-bioc-rtracklayer (1.58.0-1) ... Setting up r-bioc-hdf5array (1.26.0-1) ... Setting up r-bioc-bsgenome (1.66.3-1) ... Setting up r-bioc-bsseq (1.34.0+dfsg-4) ... 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. 0m43.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-y', 'install', 'r-bioc-bsseq'] 0m43.5s INFO: Running scripts post_install 0m43.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_install_exceptions'] 0m43.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_install_exceptions'] 0m43.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 0m44.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 0m44.7s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpch6uqx8p to testing 0m44.7s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m44.7s INFO: Running scripts pre_distupgrade 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_exceptions'] 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_exceptions'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'update'] 0m48.6s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [169 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9251 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6163 kB] Fetched 15.6 MB in 3s (5393 kB/s) Reading package lists... 0m48.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'update'] 0m48.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-yf', 'dist-upgrade'] 1m41.6s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono hdf5-helpers libaec-dev libaec0 libasan8 libatomic1 libblas3 libblosc1 libboost-dev libboost1.83-dev libbrotli-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4-openssl-dev libcurl4t64 libdatrie1 libdeflate0 libevent-2.1-7t64 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-14-dev libgfortran5 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhwasan0 libice6 libicu72 libidn2-dev libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libnghttp2-14 libnghttp2-dev libnsl-dev libnsl2 libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpkgconf3 libpng16-16t64 libpsl-dev libpsl5t64 libquadmath0 libreadline8t64 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev libssh2-1t64 libssl-dev libstdc++-12-dev libstdc++-14-dev libsz2 libtasn1-6-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc-dev libtirpc3t64 libtk8.6 libtsan2 libubsan1 libunbound8 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6t64 libzstd-dev linux-libc-dev littler nettle-dev pkgconf pkgconf-bin r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-genomeinfodbdata r-bioc-limma r-bioc-matrixgenerics r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-sparsematrixstats r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-cli r-cran-codetools r-cran-colorspace r-cran-cpp11 r-cran-crayon r-cran-data.table r-cran-farver r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-glue r-cran-gtools r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-matrix r-cran-matrixstats r-cran-munsell r-cran-permute r-cran-pkgkitten r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-rjson r-cran-rlang r-cran-scales r-cran-snow r-cran-statmod r-cran-viridislite r-cran-xml r-cran-yaml readline-common rpcsvc-proto ucf unzip x11-common xdg-utils zip zlib1g-dev Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libapt-pkg6.0 libboost1.74-dev libcurl4 libdb5.3 libext2fs2 libglib2.0-0 libgnutls30 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhogweed6 libnettle8 libpng16-16 libpsl5 libreadline8 libssh2-1 libssl3 libtirpc3 libxt6 r-bioc-beachmat r-bioc-biocio r-bioc-biostrings r-bioc-bsgenome r-bioc-bsseq r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges r-bioc-hdf5array r-bioc-iranges r-bioc-rhdf5 r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-xvector r-cran-restfulr The following NEW packages will be installed: fonts-dejavu-mono gcc-14-base libapt-pkg6.0t64 libboost1.83-dev libbrotli-dev libcurl4t64 libdb5.3t64 libevent-2.1-7t64 libext2fs2t64 libgcc-14-dev libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgnutls30t64 libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhogweed6t64 libhwasan0 libidn2-dev libnettle8t64 libnghttp2-dev libp11-kit-dev libpkgconf3 libpng16-16t64 libpsl-dev libpsl5t64 libreadline8t64 librtmp-dev libsharpyuv0 libssh2-1-dev libssh2-1t64 libssl3t64 libstdc++-14-dev libtasn1-6-dev libtirpc3t64 libunbound8 libunistring5 libxt6t64 libzstd-dev nettle-dev pkgconf pkgconf-bin r-cran-statmod 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-12-base gpgv grep gzip hdf5-helpers hostname init-system-helpers libacl1 libaec-dev libaec0 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libblosc1 libboost-dev libbrotli1 libbsd0 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcairo2 libcap-ng0 libcap2 libcom-err2 libcrypt-dev libcrypt1 libcurl4-openssl-dev libdatrie1 libdebconfclient0 libdeflate0 libexpat1 libffi8 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-s1 libgcrypt20 libgfortran5 libgmp10 libgomp1 libgpg-error0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhdf5-dev libice6 libicu72 libidn2-0 libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libnghttp2-14 libnsl-dev libnsl2 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-8-0 libpixman-1-0 libquadmath0 librtmp1 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsm6 libsmartcols1 libsnappy1v5 libss2 libssl-dev libstdc++-12-dev libstdc++6 libsystemd0 libsz2 libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff6 libtinfo6 libtirpc-common libtirpc-dev libtk8.6 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-base r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-genomeinfodbdata r-bioc-limma r-bioc-matrixgenerics r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-sparsematrixstats r-bioc-zlibbioc r-cran-bh r-cran-cli r-cran-codetools r-cran-cpp11 r-cran-data.table r-cran-farver r-cran-formatr r-cran-glue r-cran-gtools r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-matrix r-cran-matrixstats r-cran-munsell r-cran-pkgkitten r-cran-r.oo r-cran-r.utils r-cran-rcpp r-cran-rcurl r-cran-rlang r-cran-scales r-cran-viridislite r-cran-xml r-cran-yaml readline-common sed sensible-utils sysvinit-utils tar tzdata usr-is-merged util-linux util-linux-extra x11-common zip zlib1g zlib1g-dev 214 upgraded, 50 newly installed, 41 to remove and 0 not upgraded. Need to get 190 MB of archives. After this operation, 33.9 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 base-files amd64 13.5 [72.8 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libnsl-dev amd64 1.3.0-3+b2 [67.2 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libcrypt-dev amd64 1:4.4.36-5 [118 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 libc6-dev amd64 2.39-7 [1925 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libc-dev-bin amd64 2.39-7 [51.6 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [189 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.2-1 [425 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libbrotli-dev amd64 1.1.0-2+b4 [313 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2 [128 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libidn2-dev amd64 2.3.7-2 [123 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.62.1-2 [74.9 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-3 [36.2 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-3 [29.9 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-3 [26.1 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libnghttp2-dev amd64 1.62.1-2 [115 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libpsl-dev amd64 0.21.2-1.1 [77.4 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b1 [559 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libc6 amd64 2.39-7 [2791 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libc-bin amd64 2.39-7 [610 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.50-3 [81.5 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libgcrypt20 amd64 1.11.0-6 [843 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 gcc-14-base amd64 14.2.0-1 [45.7 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 libgcc-s1 amd64 14.2.0-1 [72.8 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libstdc++6 amd64 14.2.0-1 [713 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libzstd1 amd64 1.5.6+dfsg-1 [303 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libnettle8t64 amd64 3.10-1 [303 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libhogweed6t64 amd64 3.10-1 [334 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-2 [424 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.6-2 [1444 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libapt-pkg6.0t64 amd64 2.9.8 [1045 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libbz2-1.0 amd64 1.0.8-6 [37.9 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libxxhash0 amd64 0.8.2-2+b1 [26.6 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 liblz4-1 amd64 1.9.4-3 [59.4 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 liblzma5 amd64 5.6.2-2 [254 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libcap2 amd64 1:2.66-5 [27.4 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libsystemd0 amd64 256.5-1 [381 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libudev1 amd64 256.5-1 [144 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1 [87.9 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.272 [10.0 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libpcre2-8-0 amd64 10.42-4+b1 [262 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libselinux1 amd64 3.5-2+b4 [75.1 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 base-passwd amd64 3.6.4 [50.9 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-7 [19.6 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-7 [697 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libaudit-common all 1:3.1.2-4 [11.5 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libcap-ng0 amd64 0.8.5-2 [17.2 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libaudit1 amd64 1:3.1.2-4+b1 [49.0 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libcrypt1 amd64 1:4.4.36-5 [89.8 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 perl-base amd64 5.38.2-5 [1643 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 debconf all 1.5.87 [119 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libpam0g amd64 1.5.3-7 [67.7 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libpam-modules-bin amd64 1.5.3-7 [54.4 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libpam-modules amd64 1.5.3-7 [265 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libpam-runtime all 1.5.3-7 [140 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libmd0 amd64 1.1.0-2 [35.8 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libbsd0 amd64 0.12.2-1 [131 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.15.3-2 [564 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libacl1 amd64 2.3.2-2 [32.4 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libattr1 amd64 1:2.5.2-1 [22.5 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libsemanage-common all 3.5-1 [9908 B] Get:64 http://deb.debian.org/debian trixie/main amd64 libsepol2 amd64 3.7-1 [293 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libsemanage2 amd64 3.5-1+b4 [90.1 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 passwd amd64 1:4.15.3-2 [973 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 adduser all 3.137 [140 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 gpgv amd64 2.2.43-8 [216 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libseccomp2 amd64 2.5.5-1+b1 [47.3 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 apt amd64 2.9.8 [1410 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libssl-dev amd64 3.2.2-1 [2701 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.2.2-1 [1364 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 libcurl4-openssl-dev amd64 8.9.1-2 [573 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.9.1-2 [463 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libssl3t64 amd64 3.2.2-1 [2246 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libhdf5-dev amd64 1.10.10+repack-4 [2652 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4 [1253 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-7 [57.2 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-2 [186 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.19.0-3+b2 [48.9 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b1 [329 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b1 [640 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10 [181 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 libunbound8 amd64 1.20.0-1+b1 [583 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 libgnutls-dane0t64 amd64 3.8.6-2 [439 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libgnutls-openssl27t64 amd64 3.8.6-2 [439 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 libp11-kit-dev amd64 0.25.5-2 [208 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 libtasn1-6-dev amd64 4.19.0-3+b2 [98.0 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 nettle-dev amd64 3.10-1 [1316 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 libgnutls28-dev amd64 3.8.6-2 [1381 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b4 [67.7 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libssh2-1-dev amd64 1.11.0-7 [357 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libzstd-dev amd64 1.5.6+dfsg-1 [368 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 r-cran-rcurl amd64 1.98-1.14+dfsg-1+b1 [787 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:106 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.40.2-1 [166 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.40.2-1 [198 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get:114 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get:122 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.0-3+b1 [531 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b4 [439 kB] Get:125 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:126 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 8.3.0-2+b1 [2214 kB] Get:127 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-1 [48.0 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.54.0+ds-1 [219 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-1 [35.0 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1 [463 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get:134 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.81.1-3 [1496 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-1 [9280 B] Get:137 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-4 [167 kB] Get:138 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-4 [69.3 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 libtinfo6 amd64 6.5-2 [344 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2 [187 kB] Get:141 http://deb.debian.org/debian trixie/main amd64 debianutils amd64 5.20 [89.5 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 tar amd64 1.35+dfsg-3 [813 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 dpkg amd64 1.22.11 [1531 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 sysvinit-utils amd64 3.10-1 [32.7 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.0.10-1+b1 [56.7 kB] Get:147 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.40.2-1 [34.9 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.3-1+b1 [33.6 kB] Get:149 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB] Get:150 http://deb.debian.org/debian trixie/main amd64 libpaper1 amd64 1.1.29+b1 [12.9 kB] Get:151 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 1.1.29+b1 [9176 B] Get:152 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:153 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.21-1 [47.3 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-1 [137 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:156 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3 [290 kB] Get:157 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:158 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-1 [837 kB] Get:159 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:160 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get:161 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.14+dfsg-1 [1034 kB] Get:162 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get:163 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get:164 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:165 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:166 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:167 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get:168 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b1 [17.0 kB] Get:169 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.14-1 [784 kB] Get:170 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get:171 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.1-1 [28.3 MB] Get:172 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get:173 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get:174 http://deb.debian.org/debian trixie/main amd64 linux-libc-dev all 6.10.4-1 [2369 kB] Get:175 http://deb.debian.org/debian trixie/main amd64 bash amd64 5.2.21-2.1+b1 [1498 kB] Get:176 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.40.2-1 [104 kB] Get:177 http://deb.debian.org/debian trixie/main amd64 coreutils amd64 9.4-3.1 [2950 kB] Get:178 http://deb.debian.org/debian trixie/main amd64 dash amd64 0.5.12-9 [93.2 kB] Get:179 http://deb.debian.org/debian trixie/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:180 http://deb.debian.org/debian trixie/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:181 http://deb.debian.org/debian trixie/main amd64 grep amd64 3.11-4 [431 kB] Get:182 http://deb.debian.org/debian trixie/main amd64 gzip amd64 1.12-1.1 [133 kB] Get:183 http://deb.debian.org/debian trixie/main amd64 hostname amd64 3.23+nmu2 [10.6 kB] Get:184 http://deb.debian.org/debian trixie/main amd64 ncurses-bin amd64 6.5-2 [433 kB] Get:185 http://deb.debian.org/debian trixie/main amd64 sed amd64 4.9-2 [329 kB] Get:186 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.40.2-1 [138 kB] Get:187 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.40.2-1 [1214 kB] Get:188 http://deb.debian.org/debian trixie/main amd64 util-linux-extra amd64 2.40.2-1 [263 kB] Get:189 http://deb.debian.org/debian trixie/main amd64 usr-is-merged all 39 [5572 B] Get:190 http://deb.debian.org/debian trixie/main amd64 init-system-helpers all 1.66 [39.0 kB] Get:191 http://deb.debian.org/debian trixie/main amd64 ncurses-base all 6.5-2 [270 kB] Get:192 http://deb.debian.org/debian trixie/main amd64 libitm1 amd64 14.2.0-1 [25.9 kB] Get:193 http://deb.debian.org/debian trixie/main amd64 libasan8 amd64 14.2.0-1 [2727 kB] Get:194 http://deb.debian.org/debian trixie/main amd64 liblsan0 amd64 14.2.0-1 [1205 kB] Get:195 http://deb.debian.org/debian trixie/main amd64 libubsan1 amd64 14.2.0-1 [1075 kB] Get:196 http://deb.debian.org/debian trixie/main amd64 libquadmath0 amd64 14.2.0-1 [145 kB] Get:197 http://deb.debian.org/debian trixie/main amd64 libstdc++-12-dev amd64 12.4.0-2 [2081 kB] Get:198 http://deb.debian.org/debian trixie/main amd64 libgcc-12-dev amd64 12.4.0-2 [2431 kB] Get:199 http://deb.debian.org/debian trixie/main amd64 libtsan2 amd64 14.2.0-1 [2461 kB] Get:200 http://deb.debian.org/debian trixie/main amd64 gcc-12-base amd64 12.4.0-2 [42.9 kB] Get:201 http://deb.debian.org/debian trixie/main amd64 libhwasan0 amd64 14.2.0-1 [1489 kB] Get:202 http://deb.debian.org/debian trixie/main amd64 libgcc-14-dev amd64 14.2.0-1 [2673 kB] Get:203 http://deb.debian.org/debian trixie/main amd64 libstdc++-14-dev amd64 14.2.0-1 [2341 kB] Get:204 http://deb.debian.org/debian trixie/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:205 http://deb.debian.org/debian trixie/main amd64 libboost1.83-dev amd64 1.83.0-3.1 [10.6 MB] Get:206 http://deb.debian.org/debian trixie/main amd64 logsave amd64 1.47.1-1 [22.7 kB] Get:207 http://deb.debian.org/debian trixie/main amd64 libext2fs2t64 amd64 1.47.1-1 [210 kB] Get:208 http://deb.debian.org/debian trixie/main amd64 e2fsprogs amd64 1.47.1-1 [583 kB] Get:209 http://deb.debian.org/debian trixie/main amd64 libaec-dev amd64 1.1.3-1 [21.0 kB] Get:210 http://deb.debian.org/debian trixie/main amd64 libaec0 amd64 1.1.3-1 [23.4 kB] Get:211 http://deb.debian.org/debian trixie/main amd64 libsz2 amd64 1.1.3-1 [7740 B] Get:212 http://deb.debian.org/debian trixie/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-4 [89.5 kB] Get:213 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4 [63.9 kB] Get:214 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-4 [40.5 kB] Get:215 http://deb.debian.org/debian trixie/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-4 [130 kB] Get:216 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-4 [21.4 kB] Get:217 http://deb.debian.org/debian trixie/main amd64 libjpeg-dev amd64 1:2.1.5-3 [71.9 kB] Get:218 http://deb.debian.org/debian trixie/main amd64 hdf5-helpers amd64 1.10.10+repack-4 [23.5 kB] Get:219 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.40.2-1 [154 kB] Get:220 http://deb.debian.org/debian trixie/main amd64 mawk amd64 1.3.4.20240622-2 [136 kB] Get:221 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:222 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.1-1 [29.1 kB] Get:223 http://deb.debian.org/debian trixie/main amd64 libblosc1 amd64 1.21.5+ds-1+b1 [49.6 kB] Get:224 http://deb.debian.org/debian trixie/main amd64 libss2 amd64 1.47.1-1 [27.6 kB] Get:225 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b3 [692 kB] Get:226 http://deb.debian.org/debian trixie/main amd64 r-cran-littler amd64 0.3.20-1 [102 kB] Get:227 http://deb.debian.org/debian trixie/main amd64 littler all 0.3.20-1 [16.0 kB] Get:228 http://deb.debian.org/debian trixie/main amd64 r-bioc-zlibbioc all 1.48.0+dfsg-1 [9344 B] Get:229 http://deb.debian.org/debian trixie/main amd64 r-cran-matrixstats amd64 1.3.0-1 [502 kB] Get:230 http://deb.debian.org/debian trixie/main amd64 r-bioc-matrixgenerics all 1.14.0-1 [407 kB] Get:231 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgkitten all 0.2.3-1 [26.7 kB] Get:232 http://deb.debian.org/debian trixie/main amd64 r-cran-rcpp amd64 1.0.13-1 [2082 kB] Get:233 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:234 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-0-3 [4127 kB] Get:235 http://deb.debian.org/debian trixie/main amd64 r-bioc-sparsematrixstats amd64 1.14.0+dfsg-1 [904 kB] Get:236 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhtslib amd64 2.4.1+dfsg-3 [1285 kB] Get:237 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5lib amd64 1.24.2+dfsg-1+b1 [103 kB] Get:238 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5filters amd64 1.14.1+dfsg-3 [139 kB] Get:239 http://deb.debian.org/debian trixie/main amd64 r-cran-statmod amd64 1.5.0-1 [295 kB] Get:240 http://deb.debian.org/debian trixie/main amd64 r-bioc-limma amd64 3.58.1+dfsg-1 [1951 kB] Get:241 http://deb.debian.org/debian trixie/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:242 http://deb.debian.org/debian trixie/main amd64 r-cran-bh all 1.84.0-1 [5912 B] Get:243 http://deb.debian.org/debian trixie/main amd64 r-cran-cpp11 all 0.4.7-1 [219 kB] Get:244 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocparallel amd64 1.36.0-1 [1337 kB] Get:245 http://deb.debian.org/debian trixie/main amd64 r-bioc-biobase amd64 2.62.0-1 [2119 kB] Get:246 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocgenerics all 0.48.1-2 [597 kB] Get:247 http://deb.debian.org/debian trixie/main amd64 r-bioc-genomeinfodbdata all 1.2.12-1 [12.6 MB] Get:248 http://deb.debian.org/debian trixie/main amd64 r-cran-cli amd64 3.6.2-1 [1325 kB] Get:249 http://deb.debian.org/debian trixie/main amd64 r-cran-data.table amd64 1.15.4+dfsg-2.2 [1847 kB] Get:250 http://deb.debian.org/debian trixie/main amd64 r-cran-farver amd64 2.1.2-1 [1411 kB] Get:251 http://deb.debian.org/debian trixie/main amd64 r-cran-formatr all 1.14-2 [152 kB] Get:252 http://deb.debian.org/debian trixie/main amd64 r-cran-glue amd64 1.7.0-1 [157 kB] Get:253 http://deb.debian.org/debian trixie/main amd64 r-cran-gtools amd64 3.9.5-1 [362 kB] Get:254 http://deb.debian.org/debian trixie/main amd64 r-cran-labeling all 0.4.3-1 [62.4 kB] Get:255 http://deb.debian.org/debian trixie/main amd64 r-cran-rlang amd64 1.1.4-1 [1712 kB] Get:256 http://deb.debian.org/debian trixie/main amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] Get:257 http://deb.debian.org/debian trixie/main amd64 r-cran-locfit amd64 1.5-9.9-1 [514 kB] Get:258 http://deb.debian.org/debian trixie/main amd64 r-cran-munsell all 0.5.1-1 [237 kB] Get:259 http://deb.debian.org/debian trixie/main amd64 r-cran-r.oo all 1.26.0-1 [961 kB] Get:260 http://deb.debian.org/debian trixie/main amd64 r-cran-r.utils all 2.12.3-1 [1396 kB] Get:261 http://deb.debian.org/debian trixie/main amd64 r-cran-viridislite all 0.4.2-2 [1299 kB] Get:262 http://deb.debian.org/debian trixie/main amd64 r-cran-scales all 1.3.0-1 [677 kB] Get:263 http://deb.debian.org/debian trixie/main amd64 r-cran-xml amd64 3.99-0.17-1 [1761 kB] Get:264 http://deb.debian.org/debian trixie/main amd64 r-cran-yaml amd64 2.3.8-2 [107 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 190 MB in 6s (32.2 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 ... 34124 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 ... (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 ... 34135 files and directories currently installed.) Preparing to unpack .../0-libnsl-dev_1.3.0-3+b2_amd64.deb ... Unpacking libnsl-dev:amd64 (1.3.0-3+b2) over (1.3.0-2) ... Preparing to unpack .../1-libcrypt-dev_1%3a4.4.36-5_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.36-5) over (1:4.4.33-2) ... Preparing to unpack .../2-libc6-dev_2.39-7_amd64.deb ... Unpacking libc6-dev:amd64 (2.39-7) over (2.36-9+deb12u7) ... Preparing to unpack .../3-libc-dev-bin_2.39-7_amd64.deb ... Unpacking libc-dev-bin (2.39-7) over (2.36-9+deb12u7) ... Preparing to unpack .../4-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) over (1.3.3+ds-1) ... Preparing to unpack .../5-libtirpc-dev_1.3.4+ds-1.3_amd64.deb ... Unpacking libtirpc-dev:amd64 (1.3.4+ds-1.3) over (1.3.3+ds-1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../6-libunistring5_1.2-1_amd64.deb ... Unpacking libunistring5:amd64 (1.2-1) ... Setting up libunistring5:amd64 (1.2-1) ... (Reading database ... (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 ... 34148 files and directories currently installed.) Preparing to unpack .../libbrotli1_1.1.0-2+b4_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b4) over (1.0.9-2+b6) ... Selecting previously unselected package libbrotli-dev:amd64. Preparing to unpack .../libbrotli-dev_1.1.0-2+b4_amd64.deb ... Unpacking libbrotli-dev:amd64 (1.1.0-2+b4) ... 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 libidn2-dev:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34169 files and directories currently installed.) Preparing to unpack .../0-libidn2-dev_2.3.7-2_amd64.deb ... Unpacking libidn2-dev:amd64 (2.3.7-2) ... Preparing to unpack .../1-libnghttp2-14_1.62.1-2_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.62.1-2) over (1.52.0-1+deb12u1) ... Selecting previously unselected package libpkgconf3:amd64. Preparing to unpack .../2-libpkgconf3_1.8.1-3_amd64.deb ... Unpacking libpkgconf3:amd64 (1.8.1-3) ... Selecting previously unselected package pkgconf-bin. Preparing to unpack .../3-pkgconf-bin_1.8.1-3_amd64.deb ... Unpacking pkgconf-bin (1.8.1-3) ... Selecting previously unselected package pkgconf:amd64. Preparing to unpack .../4-pkgconf_1.8.1-3_amd64.deb ... Unpacking pkgconf:amd64 (1.8.1-3) ... Selecting previously unselected package libnghttp2-dev:amd64. Preparing to unpack .../5-libnghttp2-dev_1.62.1-2_amd64.deb ... Unpacking libnghttp2-dev:amd64 (1.62.1-2) ... Selecting previously unselected package libpsl-dev:amd64. Preparing to unpack .../6-libpsl-dev_0.21.2-1.1_amd64.deb ... Unpacking libpsl-dev:amd64 (0.21.2-1.1) ... Preparing to unpack .../7-libgmp10_2%3a6.3.0+dfsg-2+b1_amd64.deb ... Unpacking libgmp10:amd64 (2:6.3.0+dfsg-2+b1) over (2:6.2.1+dfsg1-1.1) ... Setting up libgmp10:amd64 (2:6.3.0+dfsg-2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34274 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 ... 34276 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) ... (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 ... 34276 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.50-3_amd64.deb ... Unpacking libgpg-error0:amd64 (1.50-3) over (1.46-1) ... Setting up libgpg-error0:amd64 (1.50-3) ... (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 ... 34276 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.11.0-6_amd64.deb ... Unpacking libgcrypt20:amd64 (1.11.0-6) over (1.10.1-3) ... Setting up libgcrypt20:amd64 (1.11.0-6) ... Selecting previously unselected package gcc-14-base:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34276 files and directories currently installed.) Preparing to unpack .../gcc-14-base_14.2.0-1_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-1) ... Setting up gcc-14-base:amd64 (14.2.0-1) ... (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 ... 34281 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14.2.0-1_amd64.deb ... Unpacking libgcc-s1:amd64 (14.2.0-1) over (12.2.0-14) ... Setting up libgcc-s1:amd64 (14.2.0-1) ... (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 ... 34281 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-1_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-1) over (12.2.0-14) ... Setting up libstdc++6:amd64 (14.2.0-1) ... (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 ... 34281 files and directories currently installed.) Preparing to unpack .../libzstd1_1.5.6+dfsg-1_amd64.deb ... Unpacking libzstd1:amd64 (1.5.6+dfsg-1) over (1.5.4+dfsg2-5) ... Setting up libzstd1:amd64 (1.5.6+dfsg-1) ... dpkg: libnettle8:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libnettle8. libhogweed6:amd64 depends on libnettle8. libgnutls30:amd64 depends on libnettle8 (>= 3.7~). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34281 files and directories currently installed.) Removing libnettle8:amd64 (3.8.1-2) ... Selecting previously unselected package libnettle8t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34273 files and directories currently installed.) Preparing to unpack .../libnettle8t64_3.10-1_amd64.deb ... Unpacking libnettle8t64:amd64 (3.10-1) ... Setting up libnettle8t64:amd64 (3.10-1) ... dpkg: libhogweed6:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libhogweed6. libgnutls30:amd64 depends on libhogweed6 (>= 3.6). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34282 files and directories currently installed.) Removing libhogweed6:amd64 (3.8.1-2) ... Selecting previously unselected package libhogweed6t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34276 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 ... 34283 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.25.5-2_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-2) over (0.24.1-2) ... Setting up libp11-kit0:amd64 (0.25.5-2) ... dpkg: libgnutls30:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libgnutls30 (>= 3.6.14). libldap-2.5-0:amd64 depends on libgnutls30 (>= 3.7.5). 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 ... 34283 files and directories currently installed.) Removing libgnutls30:amd64 (3.7.9-2+deb12u3) ... Selecting previously unselected package libgnutls30t64: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 ... 34283 files and directories currently installed.) Removing libapt-pkg6.0:amd64 (2.6.1) ... Selecting previously unselected package libapt-pkg6.0t64: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 ... 34284 files and directories currently installed.) Preparing to unpack .../libudev1_256.5-1_amd64.deb ... Unpacking libudev1:amd64 (256.5-1) over (252.26-1~deb12u2) ... Setting up libudev1:amd64 (256.5-1) ... (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 ... 34284 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) ... (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 ... 34284 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.272_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.272) over (0.270) ... Setting up libdebconfclient0:amd64 (0.272) ... (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 ... 34286 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) ... (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 ... 34285 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 ... 34279 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 ... (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 ... 34285 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a3.1.2-4_all.deb ... Unpacking libaudit-common (1:3.1.2-4) over (1:3.0.9-1) ... Setting up libaudit-common (1:3.1.2-4) ... (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 ... 34285 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.5-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.5-2) over (0.8.3-1+b3) ... Setting up libcap-ng0:amd64 (0.8.5-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34285 files and directories currently installed.) Preparing to unpack .../libcrypt1_1%3a4.4.36-5_amd64.deb ... Unpacking libcrypt1:amd64 (1:4.4.36-5) over (1:4.4.33-2) ... Setting up libcrypt1:amd64 (1:4.4.36-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34285 files and directories currently installed.) Preparing to unpack .../perl-base_5.38.2-5_amd64.deb ... Unpacking perl-base (5.38.2-5) over (5.36.0-7+deb12u1) ... Setting up perl-base (5.38.2-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34289 files and directories currently installed.) Preparing to unpack .../debconf_1.5.87_all.deb ... Unpacking debconf (1.5.87) over (1.5.82) ... Setting up debconf (1.5.87) ... Installing new version of config file /etc/debconf.conf ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34288 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.3-7_amd64.deb ... Unpacking libpam0g:amd64 (1.5.3-7) over (1.5.2-6+deb12u1) ... Setting up libpam0g:amd64 (1.5.3-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34287 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.3-7_amd64.deb ... Unpacking libpam-modules-bin (1.5.3-7) over (1.5.2-6+deb12u1) ... Setting up libpam-modules-bin (1.5.3-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34286 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.3-7_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.3-7) over (1.5.2-6+deb12u1) ... dpkg: warning: unable to delete old directory '/lib/x86_64-linux-gnu/security': Directory not empty Setting up libpam-modules:amd64 (1.5.3-7) ... Installing new version of config file /etc/security/namespace.init ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34286 files and directories currently installed.) Preparing to unpack .../libpam-runtime_1.5.3-7_all.deb ... Unpacking libpam-runtime (1.5.3-7) over (1.5.2-6+deb12u1) ... Setting up libpam-runtime (1.5.3-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34285 files and directories currently installed.) Preparing to unpack .../libmd0_1.1.0-2_amd64.deb ... Unpacking libmd0:amd64 (1.1.0-2) over (1.0.4-2) ... Setting up libmd0:amd64 (1.1.0-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34285 files and directories currently installed.) Preparing to unpack .../libbsd0_0.12.2-1_amd64.deb ... Unpacking libbsd0:amd64 (0.12.2-1) over (0.11.7-2) ... Setting up libbsd0:amd64 (0.12.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34285 files and directories currently installed.) Preparing to unpack .../login_1%3a4.15.3-2_amd64.deb ... Unpacking login (1:4.15.3-2) over (1:4.13+dfsg1-1+b1) ... Setting up login (1:4.15.3-2) ... Installing new version of config file /etc/login.defs ... Installing new version of config file /etc/pam.d/login ... (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 ... 34247 files and directories currently installed.) Preparing to unpack .../libacl1_2.3.2-2_amd64.deb ... Unpacking libacl1:amd64 (2.3.2-2) over (2.3.1-3) ... Setting up libacl1:amd64 (2.3.2-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34247 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.5.2-1_amd64.deb ... Unpacking libattr1:amd64 (1:2.5.2-1) over (1:2.5.1-4) ... Setting up libattr1:amd64 (1:2.5.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34247 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.5-1_all.deb ... Unpacking libsemanage-common (3.5-1) over (3.4-1) ... Setting up libsemanage-common (3.5-1) ... (Reading database ... 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Unpacking libcurl4-openssl-dev:amd64 (8.9.1-2) over (7.88.1-10+deb12u6) ... dpkg: libcurl4:amd64: dependency problems, but removing anyway as you requested: r-cran-rcurl depends on libcurl4 (>= 7.16.2). r-bioc-rsamtools depends on libcurl4 (>= 7.18.0). r-bioc-rhtslib depends on libcurl4 (>= 7.18.0). r-base-core depends on libcurl4 (>= 7.28.0). libhdf5-103-1:amd64 depends on libcurl4 (>= 7.16.2). (Reading database ... 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Removing libssl3:amd64 (3.0.13-1~deb12u1) ... dpkg: r-bioc-rsamtools: dependency problems, but removing anyway as you requested: r-bioc-genomicalignments depends on r-bioc-rsamtools (>= 1.31.2). Removing r-bioc-rsamtools (2.14.0-1) ... 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 ... 33716 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.2.2-1_amd64.deb ... Unpacking libssl3t64:amd64 (3.2.2-1) ... Setting up libssl3t64:amd64 (3.2.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 33731 files and directories currently installed.) Preparing to unpack .../libhdf5-dev_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-dev (1.10.10+repack-4) over (1.10.8+repack1-1) ... dpkg: libhdf5-103-1:amd64: dependency problems, but removing anyway as you requested: r-bioc-rhdf5lib depends on libhdf5-103-1. r-bioc-rhdf5 depends on libhdf5-103-1. r-bioc-hdf5array depends on libhdf5-103-1. libhdf5-hl-100:amd64 depends on libhdf5-103-1. libhdf5-fortran-102:amd64 depends on libhdf5-103-1. libhdf5-cpp-103-1:amd64 depends on libhdf5-103-1. (Reading database ... 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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 ... 33723 files and directories currently installed.) Preparing to unpack .../libhdf5-103-1t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... (Reading database ... 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(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 ... 33640 files and directories currently installed.) Preparing to unpack .../libsasl2-2_2.1.28+dfsg1-7_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-7) over (2.1.28+dfsg-10) ... Preparing to unpack .../libldap-2.5-0_2.5.18+dfsg-2_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-2) over (2.5.13+dfsg-5) ... Preparing to unpack .../libffi8_3.4.6-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.6-1) over (3.4.4-1) ... Setting up libffi8:amd64 (3.4.6-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 33639 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-3+b2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-3+b2) over (4.19.0-2) ... Setting up libtasn1-6:amd64 (4.19.0-3+b2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 33640 files and directories currently installed.) Preparing to unpack .../00-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) over (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libgmpxx4ldbl:amd64. Preparing to unpack .../01-libgmpxx4ldbl_2%3a6.3.0+dfsg-2+b1_amd64.deb ... Unpacking libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b1) ... 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Selecting previously unselected package libssh2-1-dev:amd64. Preparing to unpack .../13-libssh2-1-dev_1.11.0-7_amd64.deb ... Unpacking libssh2-1-dev:amd64 (1.11.0-7) ... Selecting previously unselected package libzstd-dev:amd64. Preparing to unpack .../14-libzstd-dev_1.5.6+dfsg-1_amd64.deb ... Unpacking libzstd-dev:amd64 (1.5.6+dfsg-1) ... Preparing to unpack .../15-r-cran-rcurl_1.98-1.14+dfsg-1+b1_amd64.deb ... Unpacking r-cran-rcurl (1.98-1.14+dfsg-1+b1) over (1.98-1.10+dfsg-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 ... 34177 files and directories currently installed.) Preparing to unpack .../0-libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... Preparing to unpack .../1-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 .../2-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 .../3-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../4-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../5-libcom-err2_1.47.1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1) over (1.47.0-2) ... Preparing to unpack .../6-libkeyutils1_1.6.3-3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-3) over (1.6.3-2) ... Preparing to unpack .../7-libblkid1_2.40.2-1_amd64.deb ... Unpacking libblkid1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up libblkid1:amd64 (2.40.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34186 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.2-1_amd64.deb ... Unpacking libmount1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up libmount1:amd64 (2.40.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34187 files and directories currently installed.) Preparing to unpack .../00-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 .../01-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Preparing to unpack .../02-fontconfig-config_2.15.0-1.1_amd64.deb ... 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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 ... 34188 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_14.2.0-1_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-1) 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 ... 34213 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 ... (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 ... 34209 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_2.40.2-1_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... 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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 ... 33622 files and directories currently installed.) Removing libtirpc3:amd64 (1.3.3+ds-1) ... Selecting previously unselected package libtirpc3t64: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 ... 35308 files and directories currently installed.) Preparing to unpack .../coreutils_9.4-3.1_amd64.deb ... Unpacking coreutils (9.4-3.1) over (9.1-1) ... Setting up coreutils (9.4-3.1) ... (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 ... 35310 files and directories currently installed.) Preparing to unpack .../diffutils_1%3a3.10-1_amd64.deb ... Unpacking diffutils (1:3.10-1) over (1:3.8-4) ... Setting up diffutils (1:3.10-1) ... (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 ... 35312 files and directories currently installed.) Preparing to unpack .../findutils_4.10.0-3_amd64.deb ... Unpacking findutils (4.10.0-3) over (4.9.0-4) ... Setting up findutils (4.10.0-3) ... (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 ... 35310 files and directories currently installed.) Preparing to unpack .../archives/grep_3.11-4_amd64.deb ... Unpacking grep (3.11-4) over (3.8-5) ... Setting up grep (3.11-4) ... (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 ... 35310 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 ... (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 ... 35310 files and directories currently installed.) Preparing to unpack .../hostname_3.23+nmu2_amd64.deb ... Unpacking hostname (3.23+nmu2) over (3.23+nmu1) ... Setting up hostname (3.23+nmu2) ... (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 ... 35310 files and directories currently installed.) Preparing to unpack .../archives/sed_4.9-2_amd64.deb ... Unpacking sed (4.9-2) over (4.9-1) ... Setting up sed (4.9-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 35310 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up libsmartcols1:amd64 (2.40.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 35311 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-1_amd64.deb ... Unpacking util-linux (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up util-linux (2.40.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 35285 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.40.2-1_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 (2.40.2-1) 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 (2.40.2-1) ... (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 ... 35325 files and directories currently installed.) Preparing to unpack .../usr-is-merged_39_all.deb ... Unpacking usr-is-merged (39) over (37~deb12u1) ... Setting up usr-is-merged (39) ... (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 ... 35325 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.66_all.deb ... Unpacking init-system-helpers (1.66) over (1.65.2) ... Setting up init-system-helpers (1.66) ... (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 ... 35325 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 ... 35323 files and directories currently installed.) Preparing to unpack .../00-libitm1_14.2.0-1_amd64.deb ... Unpacking libitm1:amd64 (14.2.0-1) over (12.2.0-14) ... Preparing to unpack .../01-libasan8_14.2.0-1_amd64.deb ... Unpacking libasan8:amd64 (14.2.0-1) over (12.2.0-14) ... Preparing to unpack .../02-liblsan0_14.2.0-1_amd64.deb ... Unpacking liblsan0:amd64 (14.2.0-1) over (12.2.0-14) ... Preparing to unpack .../03-libubsan1_14.2.0-1_amd64.deb ... Unpacking libubsan1:amd64 (14.2.0-1) over (12.2.0-14) ... Preparing to unpack .../04-libquadmath0_14.2.0-1_amd64.deb ... Unpacking libquadmath0:amd64 (14.2.0-1) 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_14.2.0-1_amd64.deb ... Unpacking libtsan2:amd64 (14.2.0-1) 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_14.2.0-1_amd64.deb ... Unpacking libhwasan0:amd64 (14.2.0-1) ... Selecting previously unselected package libgcc-14-dev:amd64. Preparing to unpack .../10-libgcc-14-dev_14.2.0-1_amd64.deb ... Unpacking libgcc-14-dev:amd64 (14.2.0-1) ... Selecting previously unselected package libstdc++-14-dev:amd64. Preparing to unpack .../11-libstdc++-14-dev_14.2.0-1_amd64.deb ... Unpacking libstdc++-14-dev:amd64 (14.2.0-1) ... 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 ... 36387 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 ... 20879 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 ... 37838 files and directories currently installed.) Removing libext2fs2:amd64 (1.47.0-2) ... Selecting previously unselected package libext2fs2t64: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 ... 37831 files and directories currently installed.) Preparing to unpack .../libext2fs2t64_1.47.1-1_amd64.deb ... 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 ... 37847 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 .../libaec-dev_1.1.3-1_amd64.deb ... Unpacking libaec-dev:amd64 (1.1.3-1) over (1.0.6-1+b1) ... Preparing to unpack .../libaec0_1.1.3-1_amd64.deb ... Unpacking libaec0:amd64 (1.1.3-1) over (1.0.6-1+b1) ... Preparing to unpack .../libsz2_1.1.3-1_amd64.deb ... Unpacking libsz2:amd64 (1.1.3-1) over (1.0.6-1+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 ... 37841 files and directories currently installed.) Removing libhdf5-hl-fortran-100:amd64 (1.10.8+repack1-1) ... Removing libhdf5-fortran-102:amd64 (1.10.8+repack1-1) ... Selecting previously unselected package libhdf5-fortran-102t64: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 ... 37827 files and directories currently installed.) Preparing to unpack .../libhdf5-fortran-102t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37835 files and directories currently installed.) Removing libhdf5-hl-cpp-100:amd64 (1.10.8+repack1-1) ... Removing libhdf5-hl-100:amd64 (1.10.8+repack1-1) ... Selecting previously unselected package libhdf5-hl-100t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37820 files and directories currently installed.) Preparing to unpack .../libhdf5-hl-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-hl-fortran-100t64:amd64. Preparing to unpack .../libhdf5-hl-fortran-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... (Reading database ... (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 ... 37836 files and directories currently installed.) Removing libhdf5-cpp-103-1:amd64 (1.10.8+repack1-1) ... Selecting previously unselected package libhdf5-cpp-103-1t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37828 files and directories currently installed.) Preparing to unpack .../libhdf5-cpp-103-1t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-hl-cpp-100t64:amd64. Preparing to unpack .../libhdf5-hl-cpp-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... Preparing to unpack .../libjpeg-dev_1%3a2.1.5-3_amd64.deb ... Unpacking libjpeg-dev:amd64 (1:2.1.5-3) over (1:2.1.5-2) ... Preparing to unpack .../hdf5-helpers_1.10.10+repack-4_amd64.deb ... Unpacking hdf5-helpers (1.10.10+repack-4) over (1.10.8+repack1-1) ... (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 ... 37846 files and directories currently installed.) Removing r-bioc-beachmat (2.14.0+ds-1) ... Removing r-bioc-biocio (1.8.0+dfsg-1) ... Removing r-bioc-genomicalignments (1.34.0-1) ... Removing r-bioc-biostrings (2.66.0-1) ... 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Setting up r-cran-matrixstats (1.3.0-1) ... Setting up littler (0.3.20-1) ... Setting up r-bioc-matrixgenerics (1.14.0-1) ... Setting up r-cran-yaml (2.3.8-2) ... Setting up r-cran-munsell (0.5.1-1) ... Setting up libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Setting up r-cran-gtools (3.9.5-1) ... Setting up r-cran-r.oo (1.26.0-1) ... Setting up r-cran-data.table (1.15.4+dfsg-2.2) ... 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-bioc-zlibbioc (1.48.0+dfsg-1) ... Setting up r-bioc-biobase (2.62.0-1) ... Setting up libcurl4-openssl-dev:amd64 (8.9.1-2) ... Setting up r-cran-cpp11 (0.4.7-1) ... Setting up libhdf5-dev (1.10.10+repack-4) ... Setting up r-cran-scales (1.3.0-1) ... Setting up r-bioc-limma (3.58.1+dfsg-1) ... Setting up r-cran-matrix (1.7-0-3) ... Setting up r-bioc-sparsematrixstats (1.14.0+dfsg-1) ... Setting up r-cran-r.utils (2.12.3-1) ... Setting up r-bioc-biocparallel (1.36.0-1) ... Setting up r-bioc-rhtslib (2.4.1+dfsg-3) ... Setting up r-bioc-rhdf5lib (1.24.2+dfsg-1+b1) ... Setting up r-bioc-rhdf5filters (1.14.1+dfsg-3) ... 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. 1m41.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-yf', 'dist-upgrade'] 1m41.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m42.8s DUMP: 7e6a2b13f9a36fe50b12d30d67e22c7e - 1m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m42.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bsseq'] 1m43.2s DUMP: E: No packages found 1m43.2s DEBUG: Command failed (status=100), but ignoring error: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bsseq'] 1m43.2s INFO: apt-cache does not know about any of the requested packages 1m43.2s INFO: Running scripts post_distupgrade 1m43.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m43.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m43.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_exceptions'] 1m43.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_exceptions'] 1m43.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m43.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m43.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m43.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m43.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_zz_backports'] 1m43.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_zz_backports'] 1m43.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 1m44.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 1m44.4s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpch6uqx8p to sid 1m44.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 1m44.4s INFO: Running scripts pre_distupgrade 1m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_exceptions'] 1m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_exceptions'] 1m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'update'] 1m48.6s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9953 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7301 kB] Fetched 17.5 MB in 3s (5689 kB/s) Reading package lists... 1m48.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'update'] 1m48.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-yf', 'dist-upgrade'] 1m59.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono hdf5-helpers libaec-dev libaec0 libasan8 libatomic1 libblas3 libblosc1 libboost-dev libboost1.83-dev libbrotli-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4-openssl-dev libcurl4t64 libdatrie1 libdeflate0 libevent-2.1-7t64 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-14-dev libgfortran5 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhwasan0 libice6 libicu72 libidn2-dev libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libnghttp2-14 libnghttp2-dev libnsl-dev libnsl2 libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpkgconf3 libpng16-16t64 libpsl-dev libpsl5t64 libquadmath0 libreadline8t64 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev libssh2-1t64 libssl-dev libstdc++-12-dev libstdc++-14-dev libsz2 libtasn1-6-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc-dev libtirpc3t64 libtk8.6 libtsan2 libubsan1 libunbound8 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6t64 libzstd-dev linux-libc-dev littler nettle-dev pkgconf pkgconf-bin r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-genomeinfodbdata r-bioc-limma r-bioc-matrixgenerics r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-sparsematrixstats r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-cli r-cran-codetools r-cran-colorspace r-cran-cpp11 r-cran-crayon r-cran-data.table r-cran-farver r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-glue r-cran-gtools r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-matrix r-cran-matrixstats r-cran-munsell r-cran-permute r-cran-pkgkitten r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-rjson r-cran-rlang r-cran-scales r-cran-snow r-cran-statmod r-cran-viridislite r-cran-xml r-cran-yaml readline-common rpcsvc-proto ucf unzip x11-common xdg-utils zip zlib1g-dev Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: login.defs openssl-provider-legacy The following packages will be upgraded: bash bsdutils gcc-14-base libasan8 libatomic1 libaudit-common libaudit1 libblkid1 libgcc-14-dev libgcc-s1 libgfortran5 libglib2.0-0t64 libgomp1 libharfbuzz0b libhwasan0 libitm1 libldap-2.5-0 liblsan0 libmount1 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libquadmath0 libreadline8t64 libselinux1 libsmartcols1 libssl-dev libssl3t64 libstdc++-14-dev libstdc++6 libtsan2 libubsan1 libuuid1 libxml2 linux-libc-dev login mawk mount openssl passwd r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-limma r-bioc-matrixgenerics r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-sparsematrixstats r-bioc-zlibbioc readline-common util-linux util-linux-extra 53 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 43.0 MB of archives. After this operation, 311 kB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.32-1 [1499 kB] Get:2 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-7 [105 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.1-1 [12.3 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.1-1 [54.5 kB] Get:5 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.40.2-7 [265 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-7 [35.3 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-7 [167 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-7 [199 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-7 [139 kB] Get:10 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-7 [1217 kB] Get:11 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-7 [154 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.7-1+b1 [76.6 kB] Get:13 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.16.0-4 [185 kB] Get:14 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-7 [57.7 kB] Get:15 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.16.0-4 [1232 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libasan8 amd64 14.2.0-3 [2728 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libubsan1 amd64 14.2.0-3 [1075 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-3 [137 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libitm1 amd64 14.2.0-3 [25.9 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-3 [9288 B] Get:21 http://deb.debian.org/debian sid/main amd64 liblsan0 amd64 14.2.0-3 [1205 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libhwasan0 amd64 14.2.0-3 [1488 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14.2.0-3 [145 kB] Get:24 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-3 [46.2 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-3 [713 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libstdc++-14-dev amd64 14.2.0-3 [2365 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libgcc-14-dev amd64 14.2.0-3 [2671 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libtsan2 amd64 14.2.0-3 [2461 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-3 [837 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-3 [72.8 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libssl-dev amd64 3.3.1-7 [2741 kB] Get:32 http://deb.debian.org/debian sid/main amd64 openssl-provider-legacy amd64 3.3.1-7 [298 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libssl3t64 amd64 3.3.1-7 [2269 kB] Get:34 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20240819-2 [138 kB] Get:35 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-5 [69.3 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.81.2-1 [1497 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 9.0.0-1 [474 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3 [187 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-2 [35.2 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-2 [54.4 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.54.0+ds-2 [223 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libxml2 amd64 2.12.7+dfsg-3+b1 [671 kB] Get:44 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.10.6-1 [2376 kB] Get:45 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.3.1-7 [1381 kB] Get:46 http://deb.debian.org/debian sid/main amd64 r-bioc-zlibbioc all 1.50.0+dfsg-1 [9652 B] Get:47 http://deb.debian.org/debian sid/main amd64 r-bioc-matrixgenerics all 1.16.0-1 [423 kB] Get:48 http://deb.debian.org/debian sid/main amd64 r-bioc-sparsematrixstats amd64 1.16.0+dfsg-1 [922 kB] Get:49 http://deb.debian.org/debian sid/main amd64 r-bioc-rhtslib amd64 3.0.0+dfsg-1 [1334 kB] Get:50 http://deb.debian.org/debian sid/main amd64 r-bioc-rhdf5lib amd64 1.26.0+dfsg-1 [104 kB] Get:51 http://deb.debian.org/debian sid/main amd64 r-bioc-rhdf5filters amd64 1.16.0+dfsg-1 [139 kB] Get:52 http://deb.debian.org/debian sid/main amd64 r-bioc-limma amd64 3.60.4+dfsg-1 [2006 kB] Get:53 http://deb.debian.org/debian sid/main amd64 r-bioc-biocparallel amd64 1.38.0-2 [1325 kB] Get:54 http://deb.debian.org/debian sid/main amd64 r-bioc-biobase amd64 2.64.0-2 [2132 kB] Get:55 http://deb.debian.org/debian sid/main amd64 r-bioc-biocgenerics all 0.50.0-1 [606 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 43.0 MB in 2s (18.8 MB/s) (Reading database ... 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Leaving 'diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra' Leaving '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 (2.40.2-1) ... Preparing to unpack .../libuuid1_2.40.2-7_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-7) over (2.40.2-1) ... Setting up libuuid1:amd64 (2.40.2-7) ... (Reading database ... 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Unpacking libssl-dev:amd64 (3.3.1-7) over (3.2.2-1) ... Preparing to unpack .../libssl3t64_3.3.1-7_amd64.deb ... Unpacking libssl3t64:amd64 (3.3.1-7) over (3.2.2-1) ... Selecting previously unselected package openssl-provider-legacy. Preparing to unpack .../openssl-provider-legacy_3.3.1-7_amd64.deb ... Unpacking openssl-provider-legacy (3.3.1-7) ... Setting up libssl3t64:amd64 (3.3.1-7) ... Setting up openssl-provider-legacy (3.3.1-7) ... (Reading database ... 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Leaving 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Leaving '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' Leaving 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) over (8.2-4) ... Preparing to unpack .../09-libxml2_2.12.7+dfsg-3+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg-3+b1) over (2.9.14+dfsg-1.3+b3) ... Preparing to unpack .../10-linux-libc-dev_6.10.6-1_all.deb ... Unpacking linux-libc-dev (6.10.6-1) over (6.10.4-1) ... Preparing to unpack .../11-openssl_3.3.1-7_amd64.deb ... Unpacking openssl (3.3.1-7) over (3.2.2-1) ... 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Preparing to unpack .../19-r-bioc-biocparallel_1.38.0-2_amd64.deb ... Unpacking r-bioc-biocparallel (1.38.0-2) over (1.36.0-1) ... Preparing to unpack .../20-r-bioc-biobase_2.64.0-2_amd64.deb ... Unpacking r-bioc-biobase (2.64.0-2) over (2.62.0-1) ... Preparing to unpack .../21-r-bioc-biocgenerics_0.50.0-1_all.deb ... Unpacking r-bioc-biocgenerics (0.50.0-1) over (0.48.1-2) ... Setting up r-bioc-biocgenerics (0.50.0-1) ... Setting up r-bioc-biocparallel (1.38.0-2) ... Setting up r-bioc-matrixgenerics (1.16.0-1) ... Setting up r-bioc-rhdf5lib (1.26.0+dfsg-1) ... Setting up linux-libc-dev (6.10.6-1) ... Setting up libgomp1:amd64 (14.2.0-3) ... Setting up r-bioc-rhdf5filters (1.16.0+dfsg-1) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Setting up r-bioc-zlibbioc (1.50.0+dfsg-1) ... Setting up r-bioc-biobase (2.64.0-2) ... Setting up libquadmath0:amd64 (14.2.0-3) ... Setting up r-bioc-limma (3.60.4+dfsg-1) ... Setting up libssl-dev:amd64 (3.3.1-7) ... Setting up libatomic1:amd64 (14.2.0-3) ... Setting up libgfortran5:amd64 (14.2.0-3) ... Setting up libubsan1:amd64 (14.2.0-3) ... Setting up mount (2.40.2-7) ... Setting up libhwasan0:amd64 (14.2.0-3) ... Setting up libasan8:amd64 (14.2.0-3) ... Setting up mawk (1.3.4.20240819-2) ... Setting up libtsan2:amd64 (14.2.0-3) ... Setting up openssl (3.3.1-7) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up readline-common (8.2-5) ... Setting up libxml2:amd64 (2.12.7+dfsg-3+b1) ... Setting up r-bioc-sparsematrixstats (1.16.0+dfsg-1) ... Setting up liblsan0:amd64 (14.2.0-3) ... Setting up libitm1:amd64 (14.2.0-3) ... Setting up util-linux-extra (2.40.2-7) ... Setting up login (1:4.16.0-2+really2.40.2-7) ... Setting up r-bioc-rhtslib (3.0.0+dfsg-1) ... Setting up libglib2.0-0t64:amd64 (2.81.2-1) ... No schema files found: doing nothing. Setting up libreadline8t64:amd64 (8.2-5) ... Setting up libharfbuzz0b:amd64 (9.0.0-1) ... Setting up libgcc-14-dev:amd64 (14.2.0-3) ... Setting up libstdc++-14-dev:amd64 (14.2.0-3) ... Setting up libpango-1.0-0:amd64 (1.54.0+ds-2) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-2) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-2) ... Processing triggers for debianutils (5.20) ... Processing triggers for libc-bin (2.39-7) ... 1m59.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-yf', 'dist-upgrade'] 1m59.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m59.9s DUMP: ca471e2c897513b29c31c8c4eb406e89 - 1m59.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m59.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bsseq'] 2m0.2s DUMP: Package: r-bioc-bsseq Version: 1.40.0+dfsg-1 Installed-Size: 3496 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-biocgenerics (>= 0.50.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-iranges (>= 2.38.1), r-bioc-genomeinfodb (>= 1.40.1), r-cran-scales, r-bioc-biobase (>= 2.64.0), r-cran-locfit, r-cran-gtools, r-cran-data.table (>= 1.11.8), r-bioc-s4vectors (>= 0.42.1), r-cran-r.utils (>= 2.0.0), r-bioc-delayedmatrixstats (>= 1.26.0), r-cran-permute, r-bioc-limma (>= 3.60.3), r-bioc-delayedarray (>= 0.30.1), r-cran-rcpp, r-bioc-biocparallel (>= 1.38.0), r-bioc-bsgenome (>= 1.72.0), r-bioc-biostrings (>= 2.72.1), r-bioc-hdf5array (>= 1.32.0), r-bioc-rhdf5 (>= 2.48.0), r-bioc-beachmat (>= 2.20.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1) Suggests: r-cran-testthat, r-bioc-biocstyle (>= 2.32.1), r-cran-rmarkdown, r-cran-knitr, r-cran-matrix, r-cran-doparallel, r-bioc-rtracklayer (>= 1.64.0), r-cran-batchtools Description-en: Bioconductor analyze, manage and store bisulfite sequencing data A collection of tools for analyzing and visualizing bisulfite sequencing data. Description-md5: 180b48f012fc46f936094bed692669d0 Homepage: https://bioconductor.org/packages/bsseq/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bsseq/r-bioc-bsseq_1.40.0+dfsg-1_amd64.deb Size: 2965072 MD5sum: 6dbd56fe0f6b86495c03717db778e173 SHA256: d06114c7dd4f0ca385f30e7cb1f04aef7749d244612d24c47e15ddbeac2b3e03 2m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bsseq'] 2m0.2s INFO: apt-cache knows about the following packages: r-bioc-bsseq 2m0.2s INFO: Running scripts pre_install 2m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_database-server'] 2m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_database-server'] 2m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_exceptions'] 2m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_exceptions'] 2m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_extras'] 2m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_extras'] 2m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture'] 2m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture'] 2m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy'] 2m0.3s 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: 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy'] 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy', 'r-bioc-bsseq'] 2m0.3s DUMP: r-bioc-bsseq: Installed: (none) Candidate: 1.40.0+dfsg-1 Version table: 1.40.0+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy', 'r-bioc-bsseq'] 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-y', 'install', 'r-bioc-bsseq'] 2m12.2s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libgcc-12-dev libnsl-dev libnsl2 libstdc++-12-dev libtirpc-dev Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: r-bioc-beachmat r-bioc-biocio r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges r-bioc-hdf5array r-bioc-iranges r-bioc-rhdf5 r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-cran-abind r-cran-askpass r-cran-curl r-cran-httr r-cran-jsonlite r-cran-mime r-cran-openssl r-cran-restfulr r-cran-sys Suggested packages: r-cran-testthat r-bioc-biocstyle r-cran-knitr r-cran-rmarkdown r-cran-rcmdcheck r-bioc-pwalign r-bioc-genomicfeatures r-bioc-affy r-cran-runit r-cran-biocmanager r-cran-doparallel r-cran-batchtools r-bioc-genefilter r-cran-lobstr r-cran-microbenchmark r-cran-profmem r-bioc-shortread r-bioc-deseq2 r-bioc-edger r-bioc-annotationdbi r-bioc-annotate r-bioc-gviz r-bioc-variantannotation r-bioc-annotationhub r-bioc-dexseq r-bioc-keggrest r-cran-digest r-bioc-experimenthub r-bioc-singlecellexperiment r-cran-bit64 r-cran-bench r-cran-dplyr r-cran-ggplot2 r-cran-mockery r-bioc-org.hs.eg.db r-bioc-graph r-cran-dbi r-cran-rmariadb r-cran-spelling Recommended packages: r-cran-testthat r-cran-spelling r-cran-knitr r-cran-later r-cran-rmarkdown r-cran-httpuv r-cran-webutils r-cran-covr r-cran-jpeg r-cran-png r-cran-readr r-cran-xml2 r-cran-vctrs r-cran-r.rsp r-cran-sf r-cran-digest r-cran-sodium r-cran-runit The following NEW packages will be installed: r-bioc-beachmat r-bioc-biocio r-bioc-biostrings r-bioc-bsgenome r-bioc-bsseq r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges r-bioc-hdf5array r-bioc-iranges r-bioc-rhdf5 r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-cran-abind r-cran-askpass r-cran-curl r-cran-httr r-cran-jsonlite r-cran-mime r-cran-openssl r-cran-restfulr r-cran-sys 0 upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 62.5 MB/62.9 MB of archives. After this operation, 96.7 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 r-bioc-s4vectors amd64 0.42.1+dfsg-1 [1894 kB] Get:2 http://deb.debian.org/debian sid/main amd64 r-bioc-iranges amd64 2.38.1-1 [2305 kB] Get:3 http://deb.debian.org/debian sid/main amd64 r-cran-abind all 1.4-5-2 [64.6 kB] Get:4 http://deb.debian.org/debian sid/main amd64 r-bioc-s4arrays amd64 1.4.1+dfsg-1 [524 kB] Get:5 http://deb.debian.org/debian sid/main amd64 r-bioc-xvector amd64 0.44.0-1 [622 kB] Get:6 http://deb.debian.org/debian sid/main amd64 r-bioc-sparsearray amd64 1.4.8+dfsg-1 [1254 kB] Get:7 http://deb.debian.org/debian sid/main amd64 r-bioc-delayedarray amd64 0.30.1+dfsg-1 [1847 kB] Get:8 http://deb.debian.org/debian sid/main amd64 r-bioc-beachmat amd64 2.20.0+ds-1 [1386 kB] Get:9 http://deb.debian.org/debian sid/main amd64 r-bioc-biocio all 1.14.0+dfsg-1 [210 kB] Get:10 http://deb.debian.org/debian sid/main amd64 r-cran-curl amd64 5.2.1+dfsg-1 [178 kB] Get:11 http://deb.debian.org/debian sid/main amd64 r-cran-jsonlite amd64 1.8.8+dfsg-1 [443 kB] Get:12 http://deb.debian.org/debian sid/main amd64 r-cran-mime amd64 0.12-2 [35.6 kB] Get:13 http://deb.debian.org/debian sid/main amd64 r-cran-sys amd64 3.4.2-1 [43.7 kB] Get:14 http://deb.debian.org/debian sid/main amd64 r-cran-askpass amd64 1.2.0-1 [24.0 kB] Get:15 http://deb.debian.org/debian sid/main amd64 r-cran-openssl amd64 2.2.0+dfsg-1 [401 kB] Get:16 http://deb.debian.org/debian sid/main amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get:17 http://deb.debian.org/debian sid/main amd64 r-bioc-ucsc.utils all 1.0.0+ds-2 [77.0 kB] Get:18 http://deb.debian.org/debian sid/main amd64 r-bioc-genomeinfodb all 1.40.1+dfsg-1 [3843 kB] Get:19 http://deb.debian.org/debian sid/main amd64 r-bioc-biostrings amd64 2.72.1+dfsg-1 [13.3 MB] Get:20 http://deb.debian.org/debian sid/main amd64 r-bioc-genomicranges amd64 1.56.1+dfsg-1 [1842 kB] Get:21 http://deb.debian.org/debian sid/main amd64 r-bioc-rsamtools amd64 2.20.0+dfsg-1 [3600 kB] Get:22 http://deb.debian.org/debian sid/main amd64 r-bioc-summarizedexperiment all 1.34.0+dfsg-1 [1102 kB] Get:23 http://deb.debian.org/debian sid/main amd64 r-bioc-genomicalignments amd64 1.40.0-1 [2160 kB] Get:24 http://deb.debian.org/debian sid/main amd64 r-bioc-rtracklayer amd64 1.64.0-1 [5061 kB] Get:25 http://deb.debian.org/debian sid/main amd64 r-bioc-bsgenome all 1.72.0-1 [6812 kB] Get:26 http://deb.debian.org/debian sid/main amd64 r-bioc-delayedmatrixstats all 1.26.0+ds-1 [487 kB] Get:27 http://deb.debian.org/debian sid/main amd64 r-bioc-rhdf5 amd64 2.48.0+dfsg-1 [857 kB] Get:28 http://deb.debian.org/debian sid/main amd64 r-bioc-hdf5array amd64 1.32.1-1 [8772 kB] Get:29 http://deb.debian.org/debian sid/main amd64 r-bioc-bsseq amd64 1.40.0+dfsg-1 [2965 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 62.5 MB in 6s (9662 kB/s) Selecting previously unselected package r-bioc-s4vectors. (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 ... 36841 files and directories currently installed.) Preparing to unpack .../00-r-bioc-s4vectors_0.42.1+dfsg-1_amd64.deb ... Unpacking r-bioc-s4vectors (0.42.1+dfsg-1) ... Selecting previously unselected package r-bioc-iranges. Preparing to unpack .../01-r-bioc-iranges_2.38.1-1_amd64.deb ... Unpacking r-bioc-iranges (2.38.1-1) ... Selecting previously unselected package r-cran-abind. 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Unpacking r-bioc-rtracklayer (1.64.0-1) ... Selecting previously unselected package r-bioc-bsgenome. Preparing to unpack .../25-r-bioc-bsgenome_1.72.0-1_all.deb ... Unpacking r-bioc-bsgenome (1.72.0-1) ... Selecting previously unselected package r-bioc-delayedmatrixstats. Preparing to unpack .../26-r-bioc-delayedmatrixstats_1.26.0+ds-1_all.deb ... Unpacking r-bioc-delayedmatrixstats (1.26.0+ds-1) ... Selecting previously unselected package r-bioc-rhdf5. Preparing to unpack .../27-r-bioc-rhdf5_2.48.0+dfsg-1_amd64.deb ... Unpacking r-bioc-rhdf5 (2.48.0+dfsg-1) ... Selecting previously unselected package r-bioc-hdf5array. Preparing to unpack .../28-r-bioc-hdf5array_1.32.1-1_amd64.deb ... Unpacking r-bioc-hdf5array (1.32.1-1) ... Selecting previously unselected package r-bioc-bsseq. Preparing to unpack .../29-r-bioc-bsseq_1.40.0+dfsg-1_amd64.deb ... Unpacking r-bioc-bsseq (1.40.0+dfsg-1) ... Setting up r-cran-curl (5.2.1+dfsg-1) ... Setting up r-cran-sys (3.4.2-1) ... Setting up r-cran-mime (0.12-2) ... Setting up r-cran-abind (1.4-5-2) ... Setting up r-bioc-rhdf5 (2.48.0+dfsg-1) ... Setting up r-cran-askpass (1.2.0-1) ... Setting up r-cran-jsonlite (1.8.8+dfsg-1) ... Setting up r-bioc-s4vectors (0.42.1+dfsg-1) ... Setting up r-bioc-iranges (2.38.1-1) ... Setting up r-cran-restfulr (0.0.15-1) ... Setting up r-cran-openssl (2.2.0+dfsg-1) ... Setting up r-bioc-s4arrays (1.4.1+dfsg-1) ... Setting up r-bioc-biocio (1.14.0+dfsg-1) ... Setting up r-cran-httr (1.4.7+dfsg-1) ... Setting up r-bioc-xvector (0.44.0-1) ... Setting up r-bioc-ucsc.utils (1.0.0+ds-2) ... Setting up r-bioc-sparsearray (1.4.8+dfsg-1) ... Setting up r-bioc-genomeinfodb (1.40.1+dfsg-1) ... Setting up r-bioc-delayedarray (0.30.1+dfsg-1) ... Setting up r-bioc-hdf5array (1.32.1-1) ... Setting up r-bioc-genomicranges (1.56.1+dfsg-1) ... Setting up r-bioc-biostrings (2.72.1+dfsg-1) ... Setting up r-bioc-delayedmatrixstats (1.26.0+ds-1) ... Setting up r-bioc-beachmat (2.20.0+ds-1) ... Setting up r-bioc-rsamtools (2.20.0+dfsg-1) ... Setting up r-bioc-summarizedexperiment (1.34.0+dfsg-1) ... Setting up r-bioc-genomicalignments (1.40.0-1) ... Setting up r-bioc-rtracklayer (1.64.0-1) ... Setting up r-bioc-bsgenome (1.72.0-1) ... Setting up r-bioc-bsseq (1.40.0+dfsg-1) ... 2m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-y', 'install', 'r-bioc-bsseq'] 2m12.2s INFO: Running scripts post_install 2m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_install_exceptions'] 2m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_install_exceptions'] 2m12.2s INFO: Running scripts post_distupgrade 2m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_exceptions'] 2m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_exceptions'] 2m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_zz_backports'] 2m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_distupgrade_zz_backports'] 2m12.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m13.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m13.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m14.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m14.9s INFO: Running scripts pre_install 2m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_database-server'] 2m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_database-server'] 2m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_exceptions'] 2m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_exceptions'] 2m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_extras'] 2m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_extras'] 2m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture'] 2m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture'] 2m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy'] 2m15.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 2m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy'] 2m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy', 'r-bioc-bsseq'] 2m15.0s DUMP: r-bioc-bsseq: Installed: 1.40.0+dfsg-1 Candidate: 1.40.0+dfsg-1 Version table: *** 1.40.0+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-cache', 'policy', 'r-bioc-bsseq'] 2m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-y', 'install', 'r-bioc-bsseq=1.40.0+dfsg-1'] 2m15.9s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-bsseq is already the newest version (1.40.0+dfsg-1). The following packages were automatically installed and are no longer required: libgcc-12-dev libnsl-dev libnsl2 libstdc++-12-dev libtirpc-dev Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m15.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', '-y', 'install', 'r-bioc-bsseq=1.40.0+dfsg-1'] 2m15.9s INFO: Running scripts post_install 2m15.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_install_exceptions'] 2m15.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_install_exceptions'] 2m16.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m17.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m19.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', '-ac', '--ignore-obsolete'] 2m23.8s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', '-ac', '--ignore-obsolete'] 2m23.8s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m23.8s DUMP: 0.15.6 2m23.8s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m23.8s INFO: Running adequate version 0.15.6 now. 2m23.8s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'r-bioc-bsseq'] 2m23.9s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'r-bioc-bsseq'] 2m23.9s INFO: Running scripts pre_remove 2m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m24.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m24.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m31.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m31.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_exceptions'] 2m31.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/pre_remove_exceptions'] 2m31.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m31.4s DUMP: install ok installed adduser adduser 3.137 install ok installed apt apt 2.9.8 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1 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-12-base:amd64 gcc-12-base 12.4.0-2 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-3 install ok installed 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 hdf5-helpers hdf5-helpers 1.10.10+repack-4 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libaec-dev:amd64 libaec-dev 1.1.3-1 install ok installed libaec0:amd64 libaec0 1.1.3-1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libasan8:amd64 libasan8 14.2.0-3 install ok installed libatomic1:amd64 libatomic1 14.2.0-3 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 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 libblosc1:amd64 libblosc1 1.21.5+ds-1+b1 install ok installed libboost-dev:amd64 libboost-dev 1.83.0.2+b2 install ok installed libboost1.83-dev:amd64 libboost1.83-dev 1.83.0-3.1 install ok installed libbrotli-dev:amd64 libbrotli-dev 1.1.0-2+b4 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b4 install ok installed libbsd0:amd64 libbsd0 0.12.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 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 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.36-5 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl4-openssl-dev:amd64 libcurl4-openssl-dev 8.9.1-2 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 libevent-2.1-7t64:amd64 libevent-2.1-7t64 2.1.12-stable-10 install ok installed libexpat1:amd64 libexpat1 2.6.2-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 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-12-dev:amd64 libgcc-12-dev 12.4.0-2 install ok installed libgcc-14-dev:amd64 libgcc-14-dev 14.2.0-3 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-3 deinstall ok config-files libglib2.0-0:amd64 libglib2.0-0 2.74.6-2+deb12u3 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.81.2-1 install ok installed libgmp-dev:amd64 libgmp-dev 2:6.3.0+dfsg-2+b1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgmpxx4ldbl:amd64 libgmpxx4ldbl 2:6.3.0+dfsg-2+b1 install ok installed libgnutls-dane0t64:amd64 libgnutls-dane0t64 3.8.6-2 install ok installed libgnutls-openssl27t64:amd64 libgnutls-openssl27t64 3.8.6-2 install ok installed libgnutls28-dev:amd64 libgnutls28-dev 3.8.6-2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-3 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-3 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 libhdf5-103-1t64:amd64 libhdf5-103-1t64 1.10.10+repack-4 install ok installed libhdf5-cpp-103-1t64:amd64 libhdf5-cpp-103-1t64 1.10.10+repack-4 install ok installed libhdf5-dev libhdf5-dev 1.10.10+repack-4 install ok installed libhdf5-fortran-102t64:amd64 libhdf5-fortran-102t64 1.10.10+repack-4 install ok installed libhdf5-hl-100t64:amd64 libhdf5-hl-100t64 1.10.10+repack-4 install ok installed libhdf5-hl-cpp-100t64:amd64 libhdf5-hl-cpp-100t64 1.10.10+repack-4 install ok installed libhdf5-hl-fortran-100t64:amd64 libhdf5-hl-fortran-100t64 1.10.10+repack-4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libhwasan0:amd64 libhwasan0 14.2.0-3 install ok installed libice6:amd64 libice6 2:1.0.10-1+b1 install ok installed libicu72:amd64 libicu72 72.1-5 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libidn2-dev:amd64 libidn2-dev 2.3.7-2 install ok installed libitm1:amd64 libitm1 14.2.0-3 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b1 install ok installed libjpeg-dev:amd64 libjpeg-dev 1:2.1.5-3 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3 install ok installed libjpeg62-turbo-dev:amd64 libjpeg62-turbo-dev 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-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-3 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-4+b1 install ok installed liblsan0:amd64 liblsan0 14.2.0-3 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 libnghttp2-dev:amd64 libnghttp2-dev 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 libp11-kit-dev:amd64 libp11-kit-dev 0.25.5-2 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-2 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.54.0+ds-2 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.54.0+ds-2 install ok installed libpaper-utils libpaper-utils 1.1.29+b1 install ok installed libpaper1:amd64 libpaper1 1.1.29+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1+b1 install ok installed libpkgconf3:amd64 libpkgconf3 1.8.1-3 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.43-5 install ok installed libpsl-dev:amd64 libpsl-dev 0.21.2-1.1 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1 install ok installed libquadmath0:amd64 libquadmath0 14.2.0-3 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-5 install ok installed librtmp-dev:amd64 librtmp-dev 2.4+20151223.gitfa8646d.1-2+b4 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 3.7-1+b1 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1+b4 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 libsnappy1v5:amd64 libsnappy1v5 1.2.1-1 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssh2-1-dev:amd64 libssh2-1-dev 1.11.0-7 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.0-7 install ok installed libssl-dev:amd64 libssl-dev 3.3.1-7 install ok installed libssl3t64:amd64 libssl3t64 3.3.1-7 install ok installed libstdc++-12-dev:amd64 libstdc++-12-dev 12.4.0-2 install ok installed libstdc++-14-dev:amd64 libstdc++-14-dev 14.2.0-3 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-3 install ok installed libsystemd0:amd64 libsystemd0 256.5-1 install ok installed libsz2:amd64 libsz2 1.1.3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtasn1-6-dev:amd64 libtasn1-6-dev 4.19.0-3+b2 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.14+dfsg-1 install ok installed libthai-data libthai-data 0.1.29-2 install ok installed libthai0:amd64 libthai0 0.1.29-2 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed 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 libtsan2:amd64 libtsan2 14.2.0-3 install ok installed libubsan1:amd64 libubsan1 14.2.0-3 install ok installed libudev1:amd64 libudev1 256.5-1 install ok installed libunbound8:amd64 libunbound8 1.20.0-1+b1 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 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 libzstd-dev:amd64 libzstd-dev 1.5.6+dfsg-1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed linux-libc-dev linux-libc-dev 6.10.6-1 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 mawk mawk 1.3.4.20240819-2 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 nettle-dev:amd64 nettle-dev 3.10-1 install ok installed openssl openssl 3.3.1-7 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.1-7 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.38.2-5 install ok installed pkgconf:amd64 pkgconf 1.8.1-3 install ok installed pkgconf-bin pkgconf-bin 1.8.1-3 install ok installed r-base-core r-base-core 4.4.1-1 install ok installed r-bioc-beachmat r-bioc-beachmat 2.20.0+ds-1 install ok installed r-bioc-biobase r-bioc-biobase 2.64.0-2 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.50.0-1 install ok installed r-bioc-biocio r-bioc-biocio 1.14.0+dfsg-1 install ok installed r-bioc-biocparallel r-bioc-biocparallel 1.38.0-2 install ok installed r-bioc-biostrings r-bioc-biostrings 2.72.1+dfsg-1 install ok installed r-bioc-bsgenome r-bioc-bsgenome 1.72.0-1 install ok installed r-bioc-bsseq r-bioc-bsseq 1.40.0+dfsg-1 install ok installed r-bioc-delayedarray r-bioc-delayedarray 0.30.1+dfsg-1 install ok installed r-bioc-delayedmatrixstats r-bioc-delayedmatrixstats 1.26.0+ds-1 install ok installed r-bioc-genomeinfodb r-bioc-genomeinfodb 1.40.1+dfsg-1 install ok installed r-bioc-genomeinfodbdata r-bioc-genomeinfodbdata 1.2.12-1 install ok installed r-bioc-genomicalignments r-bioc-genomicalignments 1.40.0-1 install ok installed r-bioc-genomicranges r-bioc-genomicranges 1.56.1+dfsg-1 install ok installed r-bioc-hdf5array r-bioc-hdf5array 1.32.1-1 install ok installed r-bioc-iranges r-bioc-iranges 2.38.1-1 install ok installed r-bioc-limma r-bioc-limma 3.60.4+dfsg-1 install ok installed r-bioc-matrixgenerics r-bioc-matrixgenerics 1.16.0-1 install ok installed r-bioc-rhdf5 r-bioc-rhdf5 2.48.0+dfsg-1 install ok installed r-bioc-rhdf5filters r-bioc-rhdf5filters 1.16.0+dfsg-1 install ok installed r-bioc-rhdf5lib r-bioc-rhdf5lib 1.26.0+dfsg-1 install ok installed r-bioc-rhtslib r-bioc-rhtslib 3.0.0+dfsg-1 install ok installed r-bioc-rsamtools r-bioc-rsamtools 2.20.0+dfsg-1 install ok installed r-bioc-rtracklayer r-bioc-rtracklayer 1.64.0-1 install ok installed r-bioc-s4arrays r-bioc-s4arrays 1.4.1+dfsg-1 install ok installed r-bioc-s4vectors r-bioc-s4vectors 0.42.1+dfsg-1 install ok installed r-bioc-sparsearray r-bioc-sparsearray 1.4.8+dfsg-1 install ok installed r-bioc-sparsematrixstats r-bioc-sparsematrixstats 1.16.0+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-bh r-cran-bh 1.84.0-1 install ok installed r-cran-bitops r-cran-bitops 1.0-7-1 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-data.table r-cran-data.table 1.15.4+dfsg-2.2 install ok installed r-cran-farver r-cran-farver 2.1.2-1 install ok installed r-cran-formatr r-cran-formatr 1.14-2 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-glue r-cran-glue 1.7.0-1 install ok installed r-cran-gtools r-cran-gtools 3.9.5-1 install ok installed r-cran-httr r-cran-httr 1.4.7+dfsg-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-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-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-openssl r-cran-openssl 2.2.0+dfsg-1 install ok installed r-cran-permute r-cran-permute 0.9-7-1 install ok installed r-cran-pkgkitten r-cran-pkgkitten 0.2.3-1 install ok installed r-cran-r.methodss3 r-cran-r.methodss3 1.8.2-1 install ok installed r-cran-r.oo r-cran-r.oo 1.26.0-1 install ok installed r-cran-r.utils r-cran-r.utils 2.12.3-1 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-rcurl r-cran-rcurl 1.98-1.14+dfsg-1+b1 install ok installed r-cran-restfulr r-cran-restfulr 0.0.15-1 install ok installed r-cran-rjson r-cran-rjson 0.2.21-1 install ok installed r-cran-rlang r-cran-rlang 1.1.4-1 install ok installed r-cran-scales r-cran-scales 1.3.0-1 install ok installed r-cran-snow r-cran-snow 1:0.4.4-2 install ok installed r-cran-statmod r-cran-statmod 1.5.0-1 install ok installed r-cran-sys r-cran-sys 3.4.2-1 install ok installed r-cran-viridislite r-cran-viridislite 0.4.2-2 install ok installed r-cran-xml r-cran-xml 3.99-0.17-1 install ok installed r-cran-yaml r-cran-yaml 2.3.8-2 install ok installed readline-common readline-common 8.2-5 install ok installed rpcsvc-proto rpcsvc-proto 1.4.3-1 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed sysvinit-utils sysvinit-utils 3.10-1 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 usr-is-merged usr-is-merged 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 2m31.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m31.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8: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', 'libzstd-dev:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'openssl', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-beachmat', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-delayedmatrixstats', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-hdf5array', 'r-bioc-iranges', 'r-bioc-limma', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-sparsematrixstats', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-bh', 'r-cran-bitops', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-farver', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-glue', 'r-cran-gtools', 'r-cran-httr', 'r-cran-jsonlite', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-locfit', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mime', 'r-cran-munsell', 'r-cran-openssl', 'r-cran-permute', 'r-cran-pkgkitten', 'r-cran-r.methodss3', 'r-cran-r.oo', 'r-cran-r.utils', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-scales', 'r-cran-snow', 'r-cran-statmod', 'r-cran-sys', 'r-cran-viridislite', 'r-cran-xml', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-bsseq'] 2m34.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Package 'libglib2.0-0' is not installed, so not removed The following packages will be REMOVED: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono hdf5-helpers libaec-dev libaec0 libasan8 libatomic1 libblas3 libblosc1 libboost-dev libboost1.83-dev libbrotli-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4-openssl-dev libcurl4t64 libdatrie1 libdeflate0 libevent-2.1-7t64 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-14-dev libgfortran5 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhwasan0 libice6 libicu72 libidn2-dev libitm1 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libnghttp2-14 libnghttp2-dev libnsl-dev libnsl2 libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpkgconf3 libpng16-16t64 libpsl-dev libpsl5t64 libquadmath0 libreadline8t64 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev libssh2-1t64 libssl-dev libstdc++-12-dev libstdc++-14-dev libsz2 libtasn1-6-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc-dev libtirpc3t64 libtk8.6 libtsan2 libubsan1 libunbound8 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6t64 libzstd-dev linux-libc-dev littler nettle-dev openssl pkgconf pkgconf-bin r-base-core r-bioc-beachmat r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biostrings r-bioc-bsgenome r-bioc-bsseq r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicranges r-bioc-hdf5array r-bioc-iranges r-bioc-limma r-bioc-matrixgenerics r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-sparsematrixstats r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-bh r-cran-bitops r-cran-cli r-cran-codetools r-cran-colorspace r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-data.table r-cran-farver r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-glue r-cran-gtools r-cran-httr r-cran-jsonlite r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-matrix r-cran-matrixstats r-cran-mime r-cran-munsell r-cran-openssl r-cran-permute r-cran-pkgkitten r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-scales r-cran-snow r-cran-statmod r-cran-sys r-cran-viridislite r-cran-xml r-cran-yaml readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 0 newly installed, 220 to remove and 0 not upgraded. After this operation, 675 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 ... 39040 files and directories currently installed.) Removing r-bioc-bsseq (1.40.0+dfsg-1) ... Removing r-bioc-bsgenome (1.72.0-1) ... Removing r-bioc-rtracklayer (1.64.0-1) ... Removing r-bioc-genomicalignments (1.40.0-1) ... Removing r-bioc-summarizedexperiment (1.34.0+dfsg-1) ... Removing r-bioc-delayedmatrixstats (1.26.0+ds-1) ... Removing r-bioc-sparsematrixstats (1.16.0+dfsg-1) ... Removing r-bioc-hdf5array (1.32.1-1) ... Removing r-bioc-beachmat (2.20.0+ds-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-rsamtools (2.20.0+dfsg-1) ... Removing r-bioc-biocparallel (1.38.0-2) ... Removing r-cran-snow (1:0.4.4-2) ... Removing r-cran-rcpp (1.0.13-1) ... Removing r-bioc-rhdf5 (2.48.0+dfsg-1) ... Removing r-bioc-rhdf5filters (1.16.0+dfsg-1) ... Removing r-bioc-rhdf5lib (1.26.0+dfsg-1) ... Removing libhdf5-dev (1.10.10+repack-4) ... Removing hdf5-helpers (1.10.10+repack-4) ... Removing libaec-dev:amd64 (1.1.3-1) ... Removing libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Removing libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... Removing libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Removing libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... Removing 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 (14.2.0-3) ... Removing libgcc-14-dev:amd64 (14.2.0-3) ... Removing libstdc++-12-dev:amd64 (12.4.0-2) ... Removing libgcc-12-dev:amd64 (12.4.0-2) ... Removing libasan8:amd64 (14.2.0-3) ... Removing libblosc1:amd64 (1.21.5+ds-1+b1) ... Removing libcurl4-openssl-dev:amd64 (8.9.1-2) ... Removing libbrotli-dev:amd64 (1.1.0-2+b4) ... Removing r-bioc-genomicranges (1.56.1+dfsg-1) ... Removing librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing r-bioc-biostrings (2.72.1+dfsg-1) ... Removing r-bioc-xvector (0.44.0-1) ... Removing libjpeg-dev:amd64 (1:2.1.5-3) ... Removing libjpeg62-turbo-dev:amd64 (1:2.1.5-3) ... Removing libgnutls28-dev:amd64 (3.8.6-2) ... Removing libgnutls-dane0t64:amd64 (3.8.6-2) ... Removing libunbound8:amd64 (1.20.0-1+b1) ... Removing libevent-2.1-7t64:amd64 (2.1.12-stable-10) ... Removing nettle-dev:amd64 (3.10-1) ... Removing libgmp-dev:amd64 (2:6.3.0+dfsg-2+b1) ... Removing libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b1) ... Removing libgnutls-openssl27t64:amd64 (3.8.6-2) ... Removing r-cran-data.table (1.15.4+dfsg-2.2) ... Removing libnsl-dev:amd64 (1.3.0-3+b2) ... Removing libtirpc-dev:amd64 (1.3.4+ds-1.3) ... Removing libnsl2:amd64 (1.3.0-3+b2) ... Removing libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Removing libhwasan0:amd64 (14.2.0-3) ... Removing r-cran-restfulr (0.0.15-1) ... Removing r-cran-xml (3.99-0.17-1) ... Removing libxml2:amd64 (2.12.7+dfsg-3+b1) ... Removing libidn2-dev:amd64 (2.3.7-2) ... Removing libitm1:amd64 (14.2.0-3) ... Removing liblsan0:amd64 (14.2.0-3) ... Removing libnghttp2-dev:amd64 (1.62.1-2) ... Removing libp11-kit-dev:amd64 (0.25.5-2) ... Removing pkgconf:amd64 (1.8.1-3) ... Removing pkgconf-bin (1.8.1-3) ... Removing libpkgconf3:amd64 (1.8.1-3) ... Removing libpsl-dev:amd64 (0.21.2-1.1) ... Removing libquadmath0:amd64 (14.2.0-3) ... Removing libsnappy1v5:amd64 (1.2.1-1) ... Removing libssh2-1-dev:amd64 (1.11.0-7) ... Removing libssl-dev:amd64 (3.3.1-7) ... Removing libtasn1-6-dev:amd64 (4.19.0-3+b2) ... Removing libtsan2:amd64 (14.2.0-3) ... Removing libubsan1:amd64 (14.2.0-3) ... Removing libzstd-dev:amd64 (1.5.6+dfsg-1) ... Removing littler (0.3.20-1) ... Removing r-bioc-biobase (2.64.0-2) ... Removing r-bioc-rhtslib (3.0.0+dfsg-1) ... Removing r-bioc-matrixgenerics (1.16.0-1) ... Removing r-bioc-biocio (1.14.0+dfsg-1) ... Removing r-bioc-limma (3.60.4+dfsg-1) ... Removing r-cran-rcurl (1.98-1.14+dfsg-1+b1) ... Removing r-cran-bitops (1.0-7-1) ... Removing r-cran-scales (1.3.0-1) ... Removing r-cran-lifecycle (1.0.4+dfsg-1) ... Removing r-cran-cli (3.6.2-1) ... Removing r-cran-codetools (0.2-20-1) ... 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-crayon (1.5.2-1) ... Removing r-cran-farver (2.1.2-1) ... 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-glue (1.7.0-1) ... Removing r-cran-gtools (3.9.5-1) ... Removing r-cran-labeling (0.4.3-1) ... Removing r-cran-locfit (1.5-9.9-1) ... Removing r-cran-rjson (0.2.21-1) ... Removing r-cran-littler (0.3.20-1) ... Removing r-cran-matrixstats (1.3.0-1) ... Removing r-cran-permute (0.9-7-1) ... Removing r-cran-pkgkitten (0.2.3-1) ... Removing r-cran-r.utils (2.12.3-1) ... Removing r-cran-r.oo (1.26.0-1) ... Removing r-cran-r.methodss3 (1.8.2-1) ... Removing r-cran-rcolorbrewer (1.1-3-1) ... Removing r-cran-rlang (1.1.4-1) ... Removing r-cran-statmod (1.5.0-1) ... Removing r-cran-viridislite (0.4.2-2) ... Removing r-cran-yaml (2.3.8-2) ... Removing r-cran-matrix (1.7-0-3) ... Removing libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... Removing libsz2:amd64 (1.1.3-1) ... Removing libaec0:amd64 (1.1.3-1) ... Removing r-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-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 linux-libc-dev (6.10.6-1) ... 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-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-sys (3.4.2-1) ... Removing rpcsvc-proto (1.4.3-1) ... 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-2) ... Removing libpangoft2-1.0-0:amd64 (1.54.0+ds-2) ... Removing libpango-1.0-0:amd64 (1.54.0+ds-2) ... Removing fontconfig (2.15.0-1.1) ... Removing libtk8.6:amd64 (8.6.14-1) ... 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 (2.81.2-1) ... Removing libatomic1:amd64 (14.2.0-3) ... 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 (14.2.0-3) ... Removing libgomp1:amd64 (14.2.0-3) ... Removing libgraphite2-3:amd64 (1.3.14-2) ... Removing libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libgssapi-krb5-2:amd64 (1.21.3-3) ... Removing libxt6t64:amd64 (1:1.2.1-1.2) ... Removing libsm6:amd64 (2:1.2.3-1+b1) ... Removing libice6:amd64 (2:1.0.10-1+b1) ... Removing libicu72:amd64 (72.1-5) ... Removing libjbig0:amd64 (2.1-6.1+b1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-3) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing 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 (8.2-5) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-7) ... 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 libtirpc-common (1.3.4+ds-1.3) ... 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 (3.3.1-7) ... Removing readline-common (8.2-5) ... Removing ucf (3.0043+nmu1) ... Removing sensible-utils (0.0.24) ... Removing unzip (6.0-28) ... Removing x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xdg-utils (1.1.3-4.1) ... Removing zip (3.0-14) ... Removing 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) ... 2m34.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8: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', 'libzstd-dev:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'openssl', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-beachmat', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-delayedmatrixstats', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-hdf5array', 'r-bioc-iranges', 'r-bioc-limma', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-sparsematrixstats', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-bh', 'r-cran-bitops', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-farver', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-glue', 'r-cran-gtools', 'r-cran-httr', 'r-cran-jsonlite', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-locfit', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mime', 'r-cran-munsell', 'r-cran-openssl', 'r-cran-permute', 'r-cran-pkgkitten', 'r-cran-r.methodss3', 'r-cran-r.oo', 'r-cran-r.utils', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-scales', 'r-cran-snow', 'r-cran-statmod', 'r-cran-sys', 'r-cran-viridislite', 'r-cran-xml', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-bsseq'] 2m34.9s INFO: Running scripts post_remove 2m34.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_remove_exceptions'] 2m34.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_remove_exceptions'] 2m34.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8: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', 'libzstd-dev:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'openssl', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-beachmat', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-delayedmatrixstats', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-hdf5array', 'r-bioc-iranges', 'r-bioc-limma', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-sparsematrixstats', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-bh', 'r-cran-bitops', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-farver', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-glue', 'r-cran-gtools', 'r-cran-httr', 'r-cran-jsonlite', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-locfit', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mime', 'r-cran-munsell', 'r-cran-openssl', 'r-cran-permute', 'r-cran-pkgkitten', 'r-cran-r.methodss3', 'r-cran-r.oo', 'r-cran-r.utils', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-scales', 'r-cran-snow', 'r-cran-statmod', 'r-cran-sys', 'r-cran-viridislite', 'r-cran-xml', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 2m35.6s DUMP: (Reading database ... 5328 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 '/etc/fonts' not empty so not removed dpkg: warning: ignoring request to remove hdf5-helpers which isn't installed dpkg: warning: ignoring request to remove libaec-dev which isn't installed dpkg: warning: ignoring request to remove libaec0 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 libblosc1 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 libbrotli-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 libcurl4-openssl-dev which isn't installed dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libevent-2.1-7t64 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-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 (2.81.2-1) ... dpkg: warning: ignoring request to remove libgmp-dev which isn't installed dpkg: warning: ignoring request to remove libgmpxx4ldbl which isn't installed dpkg: warning: ignoring request to remove libgnutls-dane0t64 which isn't installed dpkg: warning: ignoring request to remove libgnutls-openssl27t64 which isn't installed dpkg: warning: ignoring request to remove libgnutls28-dev which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhdf5-103-1t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-cpp-103-1t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-dev which isn't installed dpkg: warning: ignoring request to remove libhdf5-fortran-102t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-100t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-cpp-100t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-fortran-100t64 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 libicu72 which isn't installed dpkg: warning: ignoring request to remove libidn2-dev 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 libjpeg-dev which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo-dev which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove 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 libnghttp2-dev which isn't installed dpkg: warning: ignoring request to remove libnsl-dev which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libp11-kit-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 libpkgconf3 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libpsl-dev which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-5) ... dpkg: warning: ignoring request to remove librtmp-dev which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: 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 libsnappy1v5 which isn't installed dpkg: warning: ignoring request to remove libssh2-1-dev which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libssl-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 libsz2 which isn't installed dpkg: warning: ignoring request to remove libtasn1-6-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 libtiff6 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.3) ... dpkg: warning: ignoring request to remove libtirpc-dev which isn't installed Purging configuration files for libtirpc3t64:amd64 (1.3.4+ds-1.3) ... dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan2 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove libunbound8 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 libzstd-dev 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 dpkg: warning: ignoring request to remove nettle-dev which isn't installed Purging configuration files for openssl (3.3.1-7) ... Purging configuration files for pkgconf:amd64 (1.8.1-3) ... dpkg: warning: ignoring request to remove pkgconf-bin which isn't installed Purging configuration files for r-base-core (4.4.1-1) ... dpkg: warning: ignoring request to remove r-bioc-beachmat which isn't installed dpkg: warning: ignoring request to remove r-bioc-biobase which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocio which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocparallel which isn't installed dpkg: warning: ignoring request to remove r-bioc-biostrings which isn't installed dpkg: warning: ignoring request to remove r-bioc-bsgenome 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-delayedmatrixstats 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-genomicalignments 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-hdf5array 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-limma which isn't installed dpkg: warning: ignoring request to remove r-bioc-matrixgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5 which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5filters which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5lib which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhtslib which isn't installed dpkg: warning: ignoring request to remove r-bioc-rsamtools which isn't installed dpkg: warning: ignoring request to remove r-bioc-rtracklayer which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4arrays which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4vectors which isn't installed dpkg: warning: ignoring request to remove r-bioc-sparsearray which isn't installed dpkg: warning: ignoring request to remove r-bioc-sparsematrixstats 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-bh 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-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-data.table 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-formatr 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-glue which isn't installed dpkg: warning: ignoring request to remove r-cran-gtools 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-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-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-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-openssl which isn't installed dpkg: warning: ignoring request to remove r-cran-permute 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-r.methodss3 which isn't installed dpkg: warning: ignoring request to remove r-cran-r.oo which isn't installed dpkg: warning: ignoring request to remove r-cran-r.utils 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-rcurl which isn't installed dpkg: warning: ignoring request to remove r-cran-restfulr which isn't installed dpkg: warning: ignoring request to remove r-cran-rjson which isn't installed dpkg: warning: ignoring request to remove r-cran-rlang which isn't installed dpkg: warning: ignoring request to remove r-cran-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-statmod 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-viridislite 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-yaml which isn't installed Purging configuration files for readline-common (8.2-5) ... dpkg: warning: ignoring request to remove rpcsvc-proto which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed 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 2m35.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libunbound8: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', 'libzstd-dev:amd64', 'linux-libc-dev', 'littler', 'nettle-dev:amd64', 'openssl', 'pkgconf:amd64', 'pkgconf-bin', 'r-base-core', 'r-bioc-beachmat', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocio', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-bsgenome', 'r-bioc-delayedarray', 'r-bioc-delayedmatrixstats', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicalignments', 'r-bioc-genomicranges', 'r-bioc-hdf5array', 'r-bioc-iranges', 'r-bioc-limma', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-rtracklayer', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-sparsematrixstats', 'r-bioc-summarizedexperiment', 'r-bioc-ucsc.utils', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-askpass', 'r-cran-bh', 'r-cran-bitops', 'r-cran-cli', 'r-cran-codetools', 'r-cran-colorspace', 'r-cran-cpp11', 'r-cran-crayon', 'r-cran-curl', 'r-cran-data.table', 'r-cran-farver', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-glue', 'r-cran-gtools', 'r-cran-httr', 'r-cran-jsonlite', 'r-cran-labeling', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-locfit', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mime', 'r-cran-munsell', 'r-cran-openssl', 'r-cran-permute', 'r-cran-pkgkitten', 'r-cran-r.methodss3', 'r-cran-r.oo', 'r-cran-r.utils', 'r-cran-r6', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcurl', 'r-cran-restfulr', 'r-cran-rjson', 'r-cran-rlang', 'r-cran-scales', 'r-cran-snow', 'r-cran-statmod', 'r-cran-sys', 'r-cran-viridislite', 'r-cran-xml', 'r-cran-yaml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 2m35.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--purge', 'r-bioc-bsseq'] 2m35.7s DUMP: dpkg: warning: ignoring request to remove r-bioc-bsseq which isn't installed 2m35.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--purge', 'r-bioc-bsseq'] 2m35.7s INFO: Running scripts post_purge 2m35.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_purge_exceptions'] 2m35.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_purge_exceptions'] 2m35.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--purge', '--pending'] 2m35.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--purge', '--pending'] 2m35.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--remove', '--pending'] 2m35.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg', '--remove', '--pending'] 2m35.7s INFO: Running scripts post_test 2m35.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_test_exceptions'] 2m35.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'tmp/scripts/post_test_exceptions'] 2m35.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m36.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m36.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg-divert', '--list'] 2m36.1s 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 /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra 2m36.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'dpkg-divert', '--list'] 2m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'clean'] 2m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p', 'apt-get', 'clean'] 2m36.2s DEBUG: Recording chroot state 2m36.8s 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 2m37.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/shm'] 2m37.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/shm'] 2m37.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/console'] 2m37.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/console'] 2m37.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/ptmx'] 2m37.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/ptmx'] 2m37.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/pts'] 2m37.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/dev/pts'] 2m37.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/proc'] 2m37.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p/proc'] 2m37.3s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m37.4s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpch6uqx8p'] 2m37.4s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpch6uqx8p 2m37.4s INFO: PASS: Upgrading between Debian distributions. 2m37.4s INFO: PASS: All tests. 2m37.4s INFO: piuparts run ends. ret=0 End: 2024-08-23 16:29:18 GMT