Start: 2024-12-07 15:39:10 GMT [testing] Package: r-bioc-monocle Version: 2.32.0-1 Installed-Size: 1679 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-cran-matrix (>= 1.2-6), r-bioc-biobase, r-cran-ggplot2 (>= 1.0.0), r-cran-vgam (>= 1.0-6), r-cran-ddrtree (>= 0.1.4), r-cran-igraph (>= 1.0.1), r-bioc-biocgenerics, r-bioc-hsmmsinglecell (>= 0.101.5), r-cran-plyr, r-cran-cluster, r-cran-combinat, r-cran-fastica, r-cran-irlba (>= 2.0.0), r-cran-matrixstats, r-cran-rtsne, r-cran-mass, r-cran-reshape2, r-cran-leidenbase (>= 0.1.9), r-bioc-limma, r-cran-tibble, r-cran-dplyr, r-cran-pheatmap, r-cran-stringr, r-cran-proxy, r-cran-slam, r-cran-viridis, r-bioc-biocviews, r-cran-rann (>= 2.5), r-cran-rcpp (>= 0.12.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 14) Suggests: r-cran-hmisc, r-cran-knitr, r-cran-seurat, r-bioc-scater, r-cran-testthat Description: clustering, differential expression, and trajectory analysis for RNA-Seq Homepage: https://bioconductor.org/packages/monocle/ Description-md5: b7920263571f538286516ee16ed83a1e Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-monocle/r-bioc-monocle_2.32.0-1_amd64.deb Size: 1443904 MD5sum: d962083403bd2153d76761457a72c2b0 SHA256: cdf762549cc8b261bb4f44ca087ed35e260ef37bc01df70c4f530e8a84a9de74 [sid] Package: r-bioc-monocle Version: 2.32.0-1 Installed-Size: 1679 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-cran-matrix (>= 1.2-6), r-bioc-biobase, r-cran-ggplot2 (>= 1.0.0), r-cran-vgam (>= 1.0-6), r-cran-ddrtree (>= 0.1.4), r-cran-igraph (>= 1.0.1), r-bioc-biocgenerics, r-bioc-hsmmsinglecell (>= 0.101.5), r-cran-plyr, r-cran-cluster, r-cran-combinat, r-cran-fastica, r-cran-irlba (>= 2.0.0), r-cran-matrixstats, r-cran-rtsne, r-cran-mass, r-cran-reshape2, r-cran-leidenbase (>= 0.1.9), r-bioc-limma, r-cran-tibble, r-cran-dplyr, r-cran-pheatmap, r-cran-stringr, r-cran-proxy, r-cran-slam, r-cran-viridis, r-bioc-biocviews, r-cran-rann (>= 2.5), r-cran-rcpp (>= 0.12.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 14) Suggests: r-cran-hmisc, r-cran-knitr, r-cran-seurat, r-bioc-scater, r-cran-testthat Description: clustering, differential expression, and trajectory analysis for RNA-Seq Homepage: https://bioconductor.org/packages/monocle/ Description-md5: b7920263571f538286516ee16ed83a1e Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-monocle/r-bioc-monocle_2.32.0-1_amd64.deb Size: 1443904 MD5sum: d962083403bd2153d76761457a72c2b0 SHA256: cdf762549cc8b261bb4f44ca087ed35e260ef37bc01df70c4f530e8a84a9de74 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/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt r-bioc-monocle=2.32.0-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt r-bioc-monocle=2.32.0-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpw61dclyr 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpw61dclyr 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpw61dclyr/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'update'] 0m1.6s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [172 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9338 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6268 kB] Fetched 15.8 MB in 1s (17.5 MB/s) Reading package lists... 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'update'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libdebconfclient0 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 10.1 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.274 [10.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 10.1 kB in 0s (698 kB/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 ... 5142 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.274_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.274) over (0.273) ... Setting up libdebconfclient0:amd64 (0.274) ... Processing triggers for libc-bin (2.40-4) ... 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.3s DUMP: 27259aa3632fd0eef569aee38fa36ee0 - 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.3s INFO: Running scripts post_setup 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_dummy_users'] 0m2.8s 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 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_dummy_users'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_forbid_home'] 0m2.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_forbid_home'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.8s 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' 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_minimize'] 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_minimize'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_zz_backports'] 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_setup_zz_backports'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.8s DUMP: install ok installed apt apt 2.9.16 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.32-1+b2 install ok installed bsdutils bsdutils 1:2.40.2-11 install ok installed coreutils coreutils 9.5-1+b1 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 5.21 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-2 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.16 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libblkid1:amd64 libblkid1 2.40.2-11 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.274 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-2 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-11 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-4 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-11 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 257~rc3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libudev1:amd64 libudev1 257~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.2-1+b1 install ok installed libuuid1:amd64 libuuid1 2.40.2-11 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-11 install ok installed login.defs login.defs 1:4.16.0-5 install ok installed logsave logsave 1.47.2~rc1-2 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-11 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-5 install ok installed perl-base perl-base 5.40.0-8 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-11 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.8s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m2.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m3.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m3.1s INFO: Running scripts is_testable 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/is_testable_uninstallable'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/is_testable_uninstallable'] 0m3.1s INFO: Running scripts pre_test 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_test_exceptions'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_test_exceptions'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_test_root_password'] 0m3.1s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_test_root_password'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-monocle'] 0m3.2s DUMP: Package: r-bioc-monocle Version: 2.32.0-1 Installed-Size: 1679 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-cran-matrix (>= 1.2-6), r-bioc-biobase, r-cran-ggplot2 (>= 1.0.0), r-cran-vgam (>= 1.0-6), r-cran-ddrtree (>= 0.1.4), r-cran-igraph (>= 1.0.1), r-bioc-biocgenerics, r-bioc-hsmmsinglecell (>= 0.101.5), r-cran-plyr, r-cran-cluster, r-cran-combinat, r-cran-fastica, r-cran-irlba (>= 2.0.0), r-cran-matrixstats, r-cran-rtsne, r-cran-mass, r-cran-reshape2, r-cran-leidenbase (>= 0.1.9), r-bioc-limma, r-cran-tibble, r-cran-dplyr, r-cran-pheatmap, r-cran-stringr, r-cran-proxy, r-cran-slam, r-cran-viridis, r-bioc-biocviews, r-cran-rann (>= 2.5), r-cran-rcpp (>= 0.12.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 14) Suggests: r-cran-hmisc, r-cran-knitr, r-cran-seurat, r-bioc-scater, r-cran-testthat Description-en: clustering, differential expression, and trajectory analysis for RNA-Seq Monocle performs differential expression and time-series analysis for single-cell expression experiments. It orders individual cells according to progress through a biological process, without knowing ahead of time which genes define progress through that process. Monocle also performs differential expression analysis, clustering, visualization, and other useful tasks on single cell expression data. It is designed to work with RNA-Seq and qPCR data, but could be used with other types as well. Description-md5: b7920263571f538286516ee16ed83a1e Homepage: https://bioconductor.org/packages/monocle/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-monocle/r-bioc-monocle_2.32.0-1_amd64.deb Size: 1443904 MD5sum: d962083403bd2153d76761457a72c2b0 SHA256: cdf762549cc8b261bb4f44ca087ed35e260ef37bc01df70c4f530e8a84a9de74 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-monocle'] 0m3.2s INFO: apt-cache knows about the following packages: r-bioc-monocle 0m3.2s INFO: Running scripts pre_install 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_database-server'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_database-server'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_exceptions'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_exceptions'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_extras'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_extras'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy'] 0m3.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy', 'r-bioc-monocle'] 0m3.3s DUMP: r-bioc-monocle: Installed: (none) Candidate: 2.32.0-1 Version table: 2.32.0-1 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy', 'r-bioc-monocle'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-y', 'install', 'r-bioc-monocle'] 0m15.2s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libamd3 libasan8 libatomic1 libblas3 libboost-dev libboost1.83-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcolamd3 libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-14-dev libgfortran5 libglib2.0-0t64 libglpk40 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhwasan0 libice6 libicu72 libitm1 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libltdl7 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16t64 libpsl5t64 libquadmath0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libstdc++-14-dev libsuitesparseconfig7 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6t64 linux-libc-dev littler openssl r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocviews r-bioc-graph r-bioc-hsmmsinglecell r-bioc-limma r-bioc-rbgl r-cran-bh r-cran-biocmanager r-cran-bitops r-cran-cli r-cran-cluster r-cran-colorspace r-cran-combinat r-cran-cpp11 r-cran-ddrtree r-cran-dplyr r-cran-fansi r-cran-farver r-cran-fastica r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-igraph r-cran-irlba r-cran-isoband r-cran-labeling r-cran-lattice r-cran-leidenbase r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr r-cran-proxy r-cran-r6 r-cran-rann r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppeigen r-cran-rcurl r-cran-reshape2 r-cran-rlang r-cran-rtsne r-cran-runit r-cran-scales r-cran-slam r-cran-statmod r-cran-stringi r-cran-stringr r-cran-tibble r-cran-tidyselect r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridis r-cran-viridislite r-cran-withr r-cran-xml readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip Suggested packages: libboost-doc libboost1.83-doc libboost-atomic1.83-dev libboost-chrono1.83-dev libboost-container1.83-dev libboost-context1.83-dev libboost-contract1.83-dev libboost-coroutine1.83-dev libboost-date-time1.83-dev libboost-exception1.83-dev libboost-fiber1.83-dev libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev libboost-numpy1.83-dev libboost-program-options1.83-dev libboost-python1.83-dev libboost-random1.83-dev libboost-regex1.83-dev libboost-serialization1.83-dev libboost-stacktrace1.83-dev libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev libc-devtools glibc-doc manpages-dev low-memory-monitor libiodbc2-dev default-libmysqlclient-dev krb5-doc krb5-user libstdc++-14-doc tcl8.6 tk8.6 elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-bioc-all r-bioc-golubesets r-bioc-biocstyle r-cran-knitr r-bioc-s4vectors r-bioc-iranges r-bioc-genomicranges r-bioc-delayedarray r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-commonmark r-cran-sparsem r-cran-biasedurn r-cran-ellipse r-cran-gplots r-cran-locfit r-bioc-go.db r-bioc-org.hs.eg.db r-cran-hmisc r-cran-seurat r-bioc-scater r-cran-testthat r-cran-microbenchmark r-cran-covr r-cran-magick r-cran-rmarkdown r-cran-sf r-cran-getopt r-cran-bit64 r-cran-dbi r-cran-formattable r-cran-nanotime r-cran-palmerpenguins r-cran-survival r-cran-units r-cran-vdiffr r-cran-inline r-cran-bench r-cran-blob r-cran-brio r-cran-callr r-cran-crayon r-cran-evaluate r-cran-here r-cran-hms r-cran-htmltools r-cran-pkgbuild r-cran-pkgload r-cran-purrr r-cran-tidyr readline-doc Recommended packages: manpages manpages-dev 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-biocversion r-bioc-biocstyle r-cran-remotes r-cran-rmarkdown r-cran-testthat r-cran-curl r-cran-knitr r-cran-callr r-cran-covr r-cran-crayon r-cran-digest r-cran-htmltools r-cran-htmlwidgets r-cran-mockery r-cran-processx r-cran-ps r-cran-rprojroot r-cran-rstudioapi 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-bench r-cran-brio r-cran-decor r-cran-desc r-cran-lobstr r-cran-progress r-cran-broom r-cran-dbi r-cran-dbplyr r-cran-purrr r-cran-rmysql r-cran-rpostgresql r-cran-rsqlite r-cran-tidyr r-cran-unitizer r-cran-pkgload r-cran-hexbin r-cran-hmisc r-cran-mapproj r-cran-maps r-cran-multcomp r-cran-profvis r-cran-quantreg r-cran-ragg r-cran-rpart r-cran-sf r-cran-svglite r-cran-vdiffr r-cran-xml2 r-cran-waldo r-cran-ape r-cran-rgl r-cran-lintr r-cran-tidyverse r-cran-base64enc r-cran-markdown r-cran-microbenchmark r-cran-r.devices r-cran-r.rsp r-cran-lubridate r-cran-abind r-cran-doparallel r-cran-foreach r-cran-iterators r-cran-itertools r-cran-cba r-cran-fs r-cran-usethis r-cran-bit64 r-cran-dichromat r-cran-hms r-cran-data.table r-cran-mockr r-cran-formattable r-cran-pkgdown r-cran-zeallot 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 fonts-dejavu-mono libamd3 libasan8 libatomic1 libblas3 libboost-dev libboost1.83-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcolamd3 libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-14-dev libgfortran5 libglib2.0-0t64 libglpk40 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhwasan0 libice6 libicu72 libitm1 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libltdl7 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16t64 libpsl5t64 libquadmath0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libstdc++-14-dev libsuitesparseconfig7 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6t64 linux-libc-dev littler openssl r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocviews r-bioc-graph r-bioc-hsmmsinglecell r-bioc-limma r-bioc-monocle r-bioc-rbgl r-cran-bh r-cran-biocmanager r-cran-bitops r-cran-cli r-cran-cluster r-cran-colorspace r-cran-combinat r-cran-cpp11 r-cran-ddrtree r-cran-dplyr r-cran-fansi r-cran-farver r-cran-fastica r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-igraph r-cran-irlba r-cran-isoband r-cran-labeling r-cran-lattice r-cran-leidenbase r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr r-cran-proxy r-cran-r6 r-cran-rann r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppeigen r-cran-rcurl r-cran-reshape2 r-cran-rlang r-cran-rtsne r-cran-runit r-cran-scales r-cran-slam r-cran-statmod r-cran-stringi r-cran-stringr r-cran-tibble r-cran-tidyselect r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridis r-cran-viridislite r-cran-withr r-cran-xml readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip 0 upgraded, 172 newly installed, 0 to remove and 0 not upgraded. Need to get 177 MB of archives. After this operation, 550 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-8 [137 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libsuitesparseconfig7 amd64 1:7.8.3+dfsg-2 [23.8 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libamd3 amd64 1:7.8.3+dfsg-2 [40.7 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libasan8 amd64 14.2.0-8 [2729 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-8 [9280 B] Get:20 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-4 [152 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libitm1 amd64 14.2.0-8 [25.9 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 liblsan0 amd64 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14.2.0-8 [2369 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libboost1.83-dev amd64 1.83.0-3.2+b2 [10.6 MB] Get:35 http://deb.debian.org/debian trixie/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:36 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libcolamd3 amd64 1:7.8.3+dfsg-2 [32.5 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get:51 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.11.0-1 [351 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1501 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 libltdl7 amd64 2.4.7-8 [393 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 libglpk40 amd64 5.0-1+b2 [401 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.1.1-1 [65.4 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-4 [2450 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.55.0+ds-3 [225 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.55.0+ds-3 [54.6 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.55.0+ds-3 [35.4 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libpaper1 amd64 1.1.29+b2 [12.8 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 1.1.29+b2 [9236 B] Get:84 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.4-1 [35.2 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1042 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b2 [54.5 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b2 [17.0 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.15-1 [791 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2+b1 [188 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 unzip amd64 6.0-28 [166 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 xdg-utils all 1.2.1-2 [75.8 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.2-1 [28.3 MB] Get:101 http://deb.debian.org/debian trixie/main amd64 r-cran-littler amd64 0.3.20-1 [102 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 littler all 0.3.20-1 [16.0 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocgenerics all 0.50.0-2 [607 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 r-bioc-biobase amd64 2.64.0-4 [2132 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 r-bioc-graph amd64 1.82.0-1 [1289 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 r-cran-bh all 1.84.0-1 [5912 B] Get:107 http://deb.debian.org/debian trixie/main amd64 r-bioc-rbgl amd64 1.80.0+dfsg-1 [557 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 r-cran-xml amd64 3.99-0.17-1 [1761 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 r-cran-bitops amd64 1.0-8-1 [30.7 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 r-cran-rcurl amd64 1.98-1.16+dfsg-1 [799 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 r-cran-runit all 0.4.33-1 [390 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocviews all 1.72.0-1 [662 kB] Get:114 http://deb.debian.org/debian trixie/main amd64 r-bioc-hsmmsinglecell all 1.24.0-1 [16.8 MB] Get:115 http://deb.debian.org/debian trixie/main amd64 r-cran-statmod amd64 1.5.0-1 [295 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 r-bioc-limma amd64 3.60.6+dfsg-1 [2006 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-1-1 [4138 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 r-cran-cli amd64 3.6.3-1 [1342 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 r-cran-glue amd64 1.8.0-1 [165 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 r-cran-rlang amd64 1.1.4-1 [1712 kB] Get:122 http://deb.debian.org/debian trixie/main amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 r-cran-gtable all 0.3.6+dfsg-1 [228 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 r-cran-isoband amd64 0.2.7-1 [1614 kB] Get:125 http://deb.debian.org/debian trixie/main amd64 r-cran-mass amd64 7.3-61-1 [1112 kB] Get:126 http://deb.debian.org/debian trixie/main amd64 r-cran-nlme amd64 3.1.166-1 [2330 kB] Get:127 http://deb.debian.org/debian trixie/main amd64 r-cran-mgcv amd64 1.9-1-1 [3233 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 r-cran-farver amd64 2.1.2-1 [1411 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 r-cran-labeling all 0.4.3-1 [62.4 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 r-cran-colorspace amd64 2.1-1+dfsg-1 [1716 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 r-cran-munsell all 0.5.1-1 [237 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 r-cran-rcolorbrewer all 1.1-3-1 [54.7 kB] Get:134 http://deb.debian.org/debian trixie/main amd64 r-cran-viridislite all 0.4.2-2 [1299 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 r-cran-scales all 1.3.0-1 [677 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 r-cran-fansi amd64 1.0.5-1 [621 kB] Get:137 http://deb.debian.org/debian trixie/main amd64 r-cran-magrittr amd64 2.0.3-1 [201 kB] Get:138 http://deb.debian.org/debian trixie/main amd64 r-cran-utf8 amd64 1.2.4-1 [133 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 r-cran-vctrs amd64 0.6.5-1 [1375 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 r-cran-pillar all 1.9.0+dfsg-1 [463 kB] Get:141 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgconfig all 2.0.3-2 [19.6 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 r-cran-tibble amd64 3.2.1+dfsg-2 [420 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 r-cran-withr all 3.0.2+dfsg-1 [226 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3933 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 r-cran-vgam amd64 1.1-11-1 [7756 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 r-cran-irlba amd64 2.3.5.1-4 [296 kB] Get:147 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgkitten all 0.2.4-1 [29.1 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 r-cran-rcpp amd64 1.0.13-1-1 [2074 kB] Get:149 http://deb.debian.org/debian trixie/main amd64 r-cran-rcppeigen amd64 0.3.4.0.2-1 [1411 kB] Get:150 http://deb.debian.org/debian trixie/main amd64 r-cran-ddrtree amd64 0.1.5-2 [154 kB] Get:151 http://deb.debian.org/debian trixie/main amd64 r-cran-cpp11 all 0.5.0-1 [213 kB] Get:152 http://deb.debian.org/debian trixie/main amd64 r-cran-igraph amd64 2.0.3-1 [5037 kB] Get:153 http://deb.debian.org/debian trixie/main amd64 r-cran-plyr amd64 1.8.9-1 [832 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 r-cran-cluster amd64 2.1.6-1 [568 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 r-cran-combinat all 0.0-8-7 [42.8 kB] Get:156 http://deb.debian.org/debian trixie/main amd64 r-cran-fastica amd64 1.2-5.1-1 [42.7 kB] Get:157 http://deb.debian.org/debian trixie/main amd64 r-cran-matrixstats amd64 1.4.1-1 [510 kB] Get:158 http://deb.debian.org/debian trixie/main amd64 r-cran-rtsne amd64 0.17-1 [105 kB] Get:159 http://deb.debian.org/debian trixie/main amd64 r-cran-stringi amd64 1.8.4-1 [895 kB] Get:160 http://deb.debian.org/debian trixie/main amd64 r-cran-stringr all 1.5.1-1 [296 kB] Get:161 http://deb.debian.org/debian trixie/main amd64 r-cran-reshape2 amd64 1.4.4-2 [114 kB] Get:162 http://deb.debian.org/debian trixie/main amd64 r-cran-leidenbase amd64 0.1.27-1 [2294 kB] Get:163 http://deb.debian.org/debian trixie/main amd64 r-cran-generics all 0.1.3-1 [81.4 kB] Get:164 http://deb.debian.org/debian trixie/main amd64 r-cran-tidyselect amd64 1.2.1+dfsg-1 [223 kB] Get:165 http://deb.debian.org/debian trixie/main amd64 r-cran-dplyr amd64 1.1.4-2 [1542 kB] Get:166 http://deb.debian.org/debian trixie/main amd64 r-cran-pheatmap all 1.0.12-2 [77.9 kB] Get:167 http://deb.debian.org/debian trixie/main amd64 r-cran-proxy amd64 0.4-27-1 [182 kB] Get:168 http://deb.debian.org/debian trixie/main amd64 r-cran-slam amd64 0.1-55-1 [187 kB] Get:169 http://deb.debian.org/debian trixie/main amd64 r-cran-gridextra all 2.3-3 [1024 kB] Get:170 http://deb.debian.org/debian trixie/main amd64 r-cran-viridis all 0.6.5-1 [2991 kB] Get:171 http://deb.debian.org/debian trixie/main amd64 r-cran-rann amd64 2.6.2-1 [44.8 kB] Get:172 http://deb.debian.org/debian trixie/main amd64 r-bioc-monocle amd64 2.32.0-1 [1444 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 177 MB in 1s (252 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 ... 5146 files and directories currently installed.) Preparing to unpack .../000-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../002-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../003-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package ucf. Preparing to unpack .../004-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 .../005-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../006-libbrotli1_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libpng16-16t64:amd64. Preparing to unpack .../007-libpng16-16t64_1.6.44-2_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.44-2) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../008-libfreetype6_2.13.3+dfsg-1_amd64.deb ... Unpacking libfreetype6:amd64 (2.13.3+dfsg-1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../009-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../010-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../011-fontconfig-config_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig-config (2.15.0-1.1+b1) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../012-libfontconfig1_2.15.0-1.1+b1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.15.0-1.1+b1) ... Selecting previously unselected package fontconfig. Preparing to unpack .../013-fontconfig_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig (2.15.0-1.1+b1) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../014-libgomp1_14.2.0-8_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-8) ... Selecting previously unselected package libsuitesparseconfig7:amd64. Preparing to unpack .../015-libsuitesparseconfig7_1%3a7.8.3+dfsg-2_amd64.deb ... Unpacking libsuitesparseconfig7:amd64 (1:7.8.3+dfsg-2) ... Selecting previously unselected package libamd3:amd64. Preparing to unpack .../016-libamd3_1%3a7.8.3+dfsg-2_amd64.deb ... Unpacking libamd3:amd64 (1:7.8.3+dfsg-2) ... Selecting previously unselected package libasan8:amd64. Preparing to unpack .../017-libasan8_14.2.0-8_amd64.deb ... Unpacking libasan8:amd64 (14.2.0-8) ... Selecting previously unselected package libatomic1:amd64. Preparing to unpack .../018-libatomic1_14.2.0-8_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-8) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../019-libblas3_3.12.0-4_amd64.deb ... Unpacking libblas3:amd64 (3.12.0-4) ... Selecting previously unselected package libitm1:amd64. Preparing to unpack .../020-libitm1_14.2.0-8_amd64.deb ... Unpacking libitm1:amd64 (14.2.0-8) ... Selecting previously unselected package liblsan0:amd64. Preparing to unpack .../021-liblsan0_14.2.0-8_amd64.deb ... Unpacking liblsan0:amd64 (14.2.0-8) ... Selecting previously unselected package libtsan2:amd64. Preparing to unpack .../022-libtsan2_14.2.0-8_amd64.deb ... Unpacking libtsan2:amd64 (14.2.0-8) ... Selecting previously unselected package libubsan1:amd64. Preparing to unpack .../023-libubsan1_14.2.0-8_amd64.deb ... Unpacking libubsan1:amd64 (14.2.0-8) ... Selecting previously unselected package libhwasan0:amd64. Preparing to unpack .../024-libhwasan0_14.2.0-8_amd64.deb ... Unpacking libhwasan0:amd64 (14.2.0-8) ... Selecting previously unselected package libquadmath0:amd64. Preparing to unpack .../025-libquadmath0_14.2.0-8_amd64.deb ... Unpacking libquadmath0:amd64 (14.2.0-8) ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libsharpyuv0:amd64. Preparing to unpack .../084-libsharpyuv0_1.4.0-0.1+b1_amd64.deb ... Unpacking libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../085-libsm6_2%3a1.2.4-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.4-1) ... Selecting previously unselected package libtcl8.6:amd64. 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Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../091-libxft2_2.3.6-1+b2_amd64.deb ... Unpacking libxft2:amd64 (2.3.6-1+b2) ... Selecting previously unselected package libxss1:amd64. Preparing to unpack .../092-libxss1_1%3a1.2.3-1+b2_amd64.deb ... Unpacking libxss1:amd64 (1:1.2.3-1+b2) ... Selecting previously unselected package libtk8.6:amd64. Preparing to unpack .../093-libtk8.6_8.6.15-1_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.15-1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../094-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... 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Selecting previously unselected package r-cran-vctrs. Preparing to unpack .../138-r-cran-vctrs_0.6.5-1_amd64.deb ... Unpacking r-cran-vctrs (0.6.5-1) ... Selecting previously unselected package r-cran-pillar. Preparing to unpack .../139-r-cran-pillar_1.9.0+dfsg-1_all.deb ... Unpacking r-cran-pillar (1.9.0+dfsg-1) ... Selecting previously unselected package r-cran-pkgconfig. Preparing to unpack .../140-r-cran-pkgconfig_2.0.3-2_all.deb ... Unpacking r-cran-pkgconfig (2.0.3-2) ... Selecting previously unselected package r-cran-tibble. Preparing to unpack .../141-r-cran-tibble_3.2.1+dfsg-2_amd64.deb ... Unpacking r-cran-tibble (3.2.1+dfsg-2) ... Selecting previously unselected package r-cran-withr. Preparing to unpack .../142-r-cran-withr_3.0.2+dfsg-1_all.deb ... Unpacking r-cran-withr (3.0.2+dfsg-1) ... Selecting previously unselected package r-cran-ggplot2. Preparing to unpack .../143-r-cran-ggplot2_3.5.1+dfsg-1_all.deb ... Unpacking r-cran-ggplot2 (3.5.1+dfsg-1) ... Selecting previously unselected package r-cran-vgam. Preparing to unpack .../144-r-cran-vgam_1.1-11-1_amd64.deb ... Unpacking r-cran-vgam (1.1-11-1) ... Selecting previously unselected package r-cran-irlba. Preparing to unpack .../145-r-cran-irlba_2.3.5.1-4_amd64.deb ... Unpacking r-cran-irlba (2.3.5.1-4) ... Selecting previously unselected package r-cran-pkgkitten. Preparing to unpack .../146-r-cran-pkgkitten_0.2.4-1_all.deb ... Unpacking r-cran-pkgkitten (0.2.4-1) ... Selecting previously unselected package r-cran-rcpp. Preparing to unpack .../147-r-cran-rcpp_1.0.13-1-1_amd64.deb ... Unpacking r-cran-rcpp (1.0.13-1-1) ... Selecting previously unselected package r-cran-rcppeigen. Preparing to unpack .../148-r-cran-rcppeigen_0.3.4.0.2-1_amd64.deb ... Unpacking r-cran-rcppeigen (0.3.4.0.2-1) ... Selecting previously unselected package r-cran-ddrtree. Preparing to unpack .../149-r-cran-ddrtree_0.1.5-2_amd64.deb ... Unpacking r-cran-ddrtree (0.1.5-2) ... Selecting previously unselected package r-cran-cpp11. Preparing to unpack .../150-r-cran-cpp11_0.5.0-1_all.deb ... Unpacking r-cran-cpp11 (0.5.0-1) ... Selecting previously unselected package r-cran-igraph. Preparing to unpack .../151-r-cran-igraph_2.0.3-1_amd64.deb ... Unpacking r-cran-igraph (2.0.3-1) ... Selecting previously unselected package r-cran-plyr. Preparing to unpack .../152-r-cran-plyr_1.8.9-1_amd64.deb ... Unpacking r-cran-plyr (1.8.9-1) ... Selecting previously unselected package r-cran-cluster. Preparing to unpack .../153-r-cran-cluster_2.1.6-1_amd64.deb ... Unpacking r-cran-cluster (2.1.6-1) ... Selecting previously unselected package r-cran-combinat. Preparing to unpack .../154-r-cran-combinat_0.0-8-7_all.deb ... Unpacking r-cran-combinat (0.0-8-7) ... Selecting previously unselected package r-cran-fastica. Preparing to unpack .../155-r-cran-fastica_1.2-5.1-1_amd64.deb ... Unpacking r-cran-fastica (1.2-5.1-1) ... Selecting previously unselected package r-cran-matrixstats. Preparing to unpack .../156-r-cran-matrixstats_1.4.1-1_amd64.deb ... Unpacking r-cran-matrixstats (1.4.1-1) ... Selecting previously unselected package r-cran-rtsne. Preparing to unpack .../157-r-cran-rtsne_0.17-1_amd64.deb ... Unpacking r-cran-rtsne (0.17-1) ... Selecting previously unselected package r-cran-stringi. Preparing to unpack .../158-r-cran-stringi_1.8.4-1_amd64.deb ... Unpacking r-cran-stringi (1.8.4-1) ... Selecting previously unselected package r-cran-stringr. Preparing to unpack .../159-r-cran-stringr_1.5.1-1_all.deb ... Unpacking r-cran-stringr (1.5.1-1) ... Selecting previously unselected package r-cran-reshape2. Preparing to unpack .../160-r-cran-reshape2_1.4.4-2_amd64.deb ... Unpacking r-cran-reshape2 (1.4.4-2) ... Selecting previously unselected package r-cran-leidenbase. Preparing to unpack .../161-r-cran-leidenbase_0.1.27-1_amd64.deb ... Unpacking r-cran-leidenbase (0.1.27-1) ... Selecting previously unselected package r-cran-generics. Preparing to unpack .../162-r-cran-generics_0.1.3-1_all.deb ... Unpacking r-cran-generics (0.1.3-1) ... Selecting previously unselected package r-cran-tidyselect. Preparing to unpack .../163-r-cran-tidyselect_1.2.1+dfsg-1_amd64.deb ... Unpacking r-cran-tidyselect (1.2.1+dfsg-1) ... Selecting previously unselected package r-cran-dplyr. Preparing to unpack .../164-r-cran-dplyr_1.1.4-2_amd64.deb ... Unpacking r-cran-dplyr (1.1.4-2) ... Selecting previously unselected package r-cran-pheatmap. Preparing to unpack .../165-r-cran-pheatmap_1.0.12-2_all.deb ... Unpacking r-cran-pheatmap (1.0.12-2) ... Selecting previously unselected package r-cran-proxy. Preparing to unpack .../166-r-cran-proxy_0.4-27-1_amd64.deb ... Unpacking r-cran-proxy (0.4-27-1) ... Selecting previously unselected package r-cran-slam. Preparing to unpack .../167-r-cran-slam_0.1-55-1_amd64.deb ... Unpacking r-cran-slam (0.1-55-1) ... Selecting previously unselected package r-cran-gridextra. Preparing to unpack .../168-r-cran-gridextra_2.3-3_all.deb ... Unpacking r-cran-gridextra (2.3-3) ... Selecting previously unselected package r-cran-viridis. Preparing to unpack .../169-r-cran-viridis_0.6.5-1_all.deb ... Unpacking r-cran-viridis (0.6.5-1) ... Selecting previously unselected package r-cran-rann. Preparing to unpack .../170-r-cran-rann_2.6.2-1_amd64.deb ... Unpacking r-cran-rann (2.6.2-1) ... Selecting previously unselected package r-bioc-monocle. Preparing to unpack .../171-r-bioc-monocle_2.32.0-1_amd64.deb ... Unpacking r-bioc-monocle (2.32.0-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up libgraphite2-3:amd64 (1.3.14-2+b1) ... Setting up libpixman-1-0:amd64 (0.44.0-3) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libdatrie1:amd64 (0.2.13-3+b1) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up unzip (6.0-28) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up linux-libc-dev (6.11.10-1) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libgomp1:amd64 (14.2.0-8) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up zip (3.0-14) ... Setting up libblas3:amd64 (3.12.0-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up rpcsvc-proto (1.4.3-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libfribidi0:amd64 (1.0.15-1) ... Setting up libquadmath0:amd64 (14.2.0-8) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.44-2) ... Setting up libatomic1:amd64 (14.2.0-8) ... Setting up libtcl8.6:amd64 (8.6.15+dfsg-2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libltdl7:amd64 (2.4.7-8) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up libubsan1:amd64 (14.2.0-8) ... Setting up sensible-utils (0.0.24) ... Setting up libhwasan0:amd64 (14.2.0-8) ... Setting up libcrypt-dev:amd64 (1:4.4.36-5) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libasan8:amd64 (14.2.0-8) ... Setting up libsuitesparseconfig7:amd64 (1:7.8.3+dfsg-2) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up libthai-data (0.1.29-2) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libtsan2:amd64 (14.2.0-8) ... Setting up libc-dev-bin (2.40-4) ... Setting up openssl (3.3.2-2) ... Setting up readline-common (8.2-5) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up liblsan0:amd64 (14.2.0-8) ... Setting up libitm1:amd64 (14.2.0-8) ... Setting up libice6:amd64 (2:1.1.1-1) ... Setting up liblapack3:amd64 (3.12.0-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libamd3:amd64 (1:7.8.3+dfsg-2) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up libcolamd3:amd64 (1:7.8.3+dfsg-2) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libglib2.0-0t64:amd64 (2.82.2-3) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libglpk40:amd64 (5.0-1+b2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up ucf (3.0043+nmu1) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up libc6-dev:amd64 (2.40-4) ... Setting up libharfbuzz0b:amd64 (10.0.1-1) ... Setting up libxss1:amd64 (1:1.2.3-1+b2) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up libgcc-14-dev:amd64 (14.2.0-8) ... Setting up libstdc++-14-dev:amd64 (14.2.0-8) ... Setting up libsm6:amd64 (2:1.2.4-1) ... Setting up libpaper1:amd64 (1.1.29+b2) ... Creating config file /etc/papersize with new version Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1+b2) ... Setting up libboost1.83-dev:amd64 (1.83.0-3.2+b2) ... Setting up libcurl4t64:amd64 (8.11.0-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libtk8.6:amd64 (8.6.15-1) ... Setting up libpango-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libpaper-utils (1.1.29+b2) ... Setting up libcairo2:amd64 (1.18.2-2) ... Setting up libxt6t64:amd64 (1:1.2.1-1.2+b1) ... Setting up libboost-dev:amd64 (1.83.0.2+b2) ... Setting up libpangoft2-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libpangocairo-1.0-0:amd64 (1.55.0+ds-3) ... Setting up r-base-core (4.4.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-labeling (0.4.3-1) ... Setting up r-cran-lattice (0.22-6-1) ... Setting up r-cran-nlme (3.1.166-1) ... Setting up r-cran-farver (2.1.2-1) ... Setting up r-cran-xml (3.99-0.17-1) ... Setting up r-cran-viridislite (0.4.2-2) ... Setting up r-cran-cluster (2.1.6-1) ... Setting up r-cran-statmod (1.5.0-1) ... Setting up r-cran-proxy (0.4-27-1) ... Setting up r-cran-r6 (2.5.1-1) ... Setting up r-cran-pkgkitten (0.2.4-1) ... Setting up r-cran-magrittr (2.0.3-1) ... Setting up r-cran-littler (0.3.20-1) ... Setting up r-cran-bh (1.84.0-1) ... Setting up r-cran-rcpp (1.0.13-1-1) ... Setting up r-cran-combinat (0.0-8-7) ... Setting up r-bioc-biocgenerics (0.50.0-2) ... Setting up r-cran-rlang (1.1.4-1) ... Setting up r-cran-matrixstats (1.4.1-1) ... Setting up littler (0.3.20-1) ... Setting up r-cran-vgam (1.1-11-1) ... Setting up r-cran-withr (3.0.2+dfsg-1) ... Setting up r-cran-slam (0.1-55-1) ... Setting up r-cran-generics (0.1.3-1) ... Setting up r-cran-rann (2.6.2-1) ... Setting up r-cran-fansi (1.0.5-1) ... Setting up r-cran-fastica (1.2-5.1-1) ... Setting up r-cran-mass (7.3-61-1) ... Setting up r-cran-glue (1.8.0-1) ... Setting up r-cran-cli (3.6.3-1) ... Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... Setting up r-cran-bitops (1.0-8-1) ... Setting up r-cran-biocmanager (1.30.25+dfsg-1) ... Setting up r-bioc-biobase (2.64.0-4) ... Setting up r-cran-pkgconfig (2.0.3-2) ... Setting up r-cran-utf8 (1.2.4-1) ... Setting up r-cran-colorspace (2.1-1+dfsg-1) ... Setting up r-cran-stringi (1.8.4-1) ... Setting up r-cran-cpp11 (0.5.0-1) ... Setting up r-cran-plyr (1.8.9-1) ... Setting up r-cran-rcolorbrewer (1.1-3-1) ... Setting up r-cran-isoband (0.2.7-1) ... Setting up r-cran-runit (0.4.33-1) ... Setting up r-bioc-limma (3.60.6+dfsg-1) ... Setting up r-cran-gtable (0.3.6+dfsg-1) ... Setting up r-cran-matrix (1.7-1-1) ... Setting up r-cran-irlba (2.3.5.1-4) ... Setting up r-cran-mgcv (1.9-1-1) ... Setting up r-cran-rtsne (0.17-1) ... Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... Setting up r-cran-vctrs (0.6.5-1) ... Setting up r-cran-rcppeigen (0.3.4.0.2-1) ... Setting up r-bioc-graph (1.82.0-1) ... Setting up r-cran-pillar (1.9.0+dfsg-1) ... Setting up r-bioc-rbgl (1.80.0+dfsg-1) ... Setting up r-bioc-biocviews (1.72.0-1) ... Setting up r-bioc-hsmmsinglecell (1.24.0-1) ... Setting up r-cran-stringr (1.5.1-1) ... Setting up r-cran-munsell (0.5.1-1) ... Setting up r-cran-tibble (3.2.1+dfsg-2) ... Setting up r-cran-igraph (2.0.3-1) ... Setting up r-cran-tidyselect (1.2.1+dfsg-1) ... Setting up r-cran-leidenbase (0.1.27-1) ... Setting up r-cran-reshape2 (1.4.4-2) ... Setting up r-cran-gridextra (2.3-3) ... Setting up r-cran-ddrtree (0.1.5-2) ... Setting up r-cran-scales (1.3.0-1) ... Setting up r-cran-dplyr (1.1.4-2) ... Setting up r-cran-pheatmap (1.0.12-2) ... Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ... Setting up r-cran-viridis (0.6.5-1) ... Setting up r-bioc-monocle (2.32.0-1) ... Processing triggers for libc-bin (2.40-4) ... 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. 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-y', 'install', 'r-bioc-monocle'] 0m15.2s INFO: Running scripts post_install 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_install_exceptions'] 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_install_exceptions'] 0m15.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m16.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m16.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpw61dclyr to sid 0m16.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m16.2s INFO: Running scripts pre_distupgrade 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_exceptions'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_exceptions'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'update'] 0m18.3s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.0 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7345 kB] Fetched 17.6 MB in 2s (11.2 MB/s) Reading package lists... 0m18.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'update'] 0m18.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-yf', 'dist-upgrade'] 0m20.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: libgdbm-compat4t64 libgdbm6t64 libncursesw6 libperl5.40 libproc2-0 perl perl-modules-5.40 procps The following packages will be upgraded: bash bsdutils libblkid1 libgpg-error0 libharfbuzz0b libmount1 libsmartcols1 libunistring5 libuuid1 linux-libc-dev login login.defs mount passwd ucf util-linux 16 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 17.4 MB of archives. After this operation, 54.9 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.37-1 [1501 kB] Get:2 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-12 [106 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-12 [36.0 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-12 [168 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-12 [199 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-12 [139 kB] Get:7 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-12 [1209 kB] Get:8 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-12 [155 kB] Get:9 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-12 [81.8 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.51-2 [82.1 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get:12 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.16.0-7 [185 kB] Get:13 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.16.0-7 [1233 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.5-2+b1 [136 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get:16 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get:17 http://deb.debian.org/debian sid/main amd64 perl-modules-5.40 all 5.40.0-8 [3015 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libperl5.40 amd64 5.40.0-8 [4320 kB] Get:21 http://deb.debian.org/debian sid/main amd64 perl amd64 5.40.0-8 [267 kB] Get:22 http://deb.debian.org/debian sid/main amd64 ucf all 3.0045 [45.2 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 10.1.0-1 [478 kB] Get:24 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.12.3-1 [2459 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 17.4 MB in 0s (190 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 ... 37493 files and directories currently installed.) Preparing to unpack .../bash_5.2.37-1_amd64.deb ... Unpacking bash (5.2.37-1) over (5.2.32-1+b2) ... Setting up bash (5.2.37-1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37492 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.40.2-12_amd64.deb ... Unpacking bsdutils (1:2.40.2-12) over (1:2.40.2-11) ... Setting up bsdutils (1:2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37492 files and directories currently installed.) Preparing to unpack .../libuuid1_2.40.2-12_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libuuid1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37492 files and directories currently installed.) Preparing to unpack .../libblkid1_2.40.2-12_amd64.deb ... Unpacking libblkid1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libblkid1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37492 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.2-12_amd64.deb ... Unpacking libmount1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libmount1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37492 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-12_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libsmartcols1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37492 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-12_amd64.deb ... Unpacking util-linux (2.40.2-12) over (2.40.2-11) ... Setting up util-linux (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 37489 files and directories currently installed.) Preparing to unpack .../mount_2.40.2-12_amd64.deb ... Unpacking mount (2.40.2-12) over (2.40.2-11) ... Preparing to unpack .../login_1%3a4.16.0-2+really2.40.2-12_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.2-12) over (1:4.16.0-2+really2.40.2-11) ... Preparing to unpack .../libgpg-error0_1.51-2_amd64.deb ... Unpacking libgpg-error0:amd64 (1.51-2) over (1.50-4) ... Setting up libgpg-error0:amd64 (1.51-2) ... (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 ... 37489 files and directories currently installed.) Preparing to unpack .../libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) over (1.2-1+b1) ... Setting up libunistring5:amd64 (1.3-1) ... (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 ... 37488 files and directories currently installed.) Preparing to unpack .../00-login.defs_1%3a4.16.0-7_all.deb ... Unpacking login.defs (1:4.16.0-7) over (1:4.16.0-5) ... Preparing to unpack .../01-passwd_1%3a4.16.0-7_amd64.deb ... Unpacking passwd (1:4.16.0-7) over (1:4.16.0-5) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../02-libncursesw6_6.5-2+b1_amd64.deb ... Unpacking libncursesw6:amd64 (6.5-2+b1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../03-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../04-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package perl-modules-5.40. Preparing to unpack .../05-perl-modules-5.40_5.40.0-8_all.deb ... Unpacking perl-modules-5.40 (5.40.0-8) ... Selecting previously unselected package libgdbm6t64:amd64. Preparing to unpack .../06-libgdbm6t64_1.24-2_amd64.deb ... Unpacking libgdbm6t64:amd64 (1.24-2) ... Selecting previously unselected package libgdbm-compat4t64:amd64. Preparing to unpack .../07-libgdbm-compat4t64_1.24-2_amd64.deb ... Unpacking libgdbm-compat4t64:amd64 (1.24-2) ... Selecting previously unselected package libperl5.40:amd64. Preparing to unpack .../08-libperl5.40_5.40.0-8_amd64.deb ... Unpacking libperl5.40:amd64 (5.40.0-8) ... Selecting previously unselected package perl. Preparing to unpack .../09-perl_5.40.0-8_amd64.deb ... Unpacking perl (5.40.0-8) ... Preparing to unpack .../10-ucf_3.0045_all.deb ... Unpacking ucf (3.0045) over (3.0043+nmu1) ... Preparing to unpack .../11-libharfbuzz0b_10.1.0-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (10.1.0-1) over (10.0.1-1) ... Preparing to unpack .../12-linux-libc-dev_6.12.3-1_all.deb ... Unpacking linux-libc-dev (6.12.3-1) over (6.11.10-1) ... Setting up libgdbm6t64:amd64 (1.24-2) ... Setting up libgdbm-compat4t64:amd64 (1.24-2) ... Setting up login.defs (1:4.16.0-7) ... Setting up linux-libc-dev (6.12.3-1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up libncursesw6:amd64 (6.5-2+b1) ... Setting up passwd (1:4.16.0-7) ... Setting up mount (2.40.2-12) ... Setting up perl-modules-5.40 (5.40.0-8) ... Setting up procps (2:4.0.4-6) ... Setting up libharfbuzz0b:amd64 (10.1.0-1) ... Setting up login (1:4.16.0-2+really2.40.2-12) ... Setting up libperl5.40:amd64 (5.40.0-8) ... Setting up perl (5.40.0-8) ... Setting up ucf (3.0045) ... Installing new version of config file /etc/ucf.conf ... Processing triggers for libc-bin (2.40-4) ... Processing triggers for debianutils (5.21) ... 0m20.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-yf', 'dist-upgrade'] 0m20.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m20.5s DUMP: ab26f25f331df42cd7291ea40c40155e - 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-monocle'] 0m20.6s DUMP: Package: r-bioc-monocle Version: 2.32.0-1 Installed-Size: 1679 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-cran-matrix (>= 1.2-6), r-bioc-biobase, r-cran-ggplot2 (>= 1.0.0), r-cran-vgam (>= 1.0-6), r-cran-ddrtree (>= 0.1.4), r-cran-igraph (>= 1.0.1), r-bioc-biocgenerics, r-bioc-hsmmsinglecell (>= 0.101.5), r-cran-plyr, r-cran-cluster, r-cran-combinat, r-cran-fastica, r-cran-irlba (>= 2.0.0), r-cran-matrixstats, r-cran-rtsne, r-cran-mass, r-cran-reshape2, r-cran-leidenbase (>= 0.1.9), r-bioc-limma, r-cran-tibble, r-cran-dplyr, r-cran-pheatmap, r-cran-stringr, r-cran-proxy, r-cran-slam, r-cran-viridis, r-bioc-biocviews, r-cran-rann (>= 2.5), r-cran-rcpp (>= 0.12.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 14) Suggests: r-cran-hmisc, r-cran-knitr, r-cran-seurat, r-bioc-scater, r-cran-testthat Description-en: clustering, differential expression, and trajectory analysis for RNA-Seq Monocle performs differential expression and time-series analysis for single-cell expression experiments. It orders individual cells according to progress through a biological process, without knowing ahead of time which genes define progress through that process. Monocle also performs differential expression analysis, clustering, visualization, and other useful tasks on single cell expression data. It is designed to work with RNA-Seq and qPCR data, but could be used with other types as well. Description-md5: b7920263571f538286516ee16ed83a1e Homepage: https://bioconductor.org/packages/monocle/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-monocle/r-bioc-monocle_2.32.0-1_amd64.deb Size: 1443904 MD5sum: d962083403bd2153d76761457a72c2b0 SHA256: cdf762549cc8b261bb4f44ca087ed35e260ef37bc01df70c4f530e8a84a9de74 0m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-monocle'] 0m20.6s INFO: apt-cache knows about the following packages: r-bioc-monocle 0m20.6s INFO: Running scripts pre_install 0m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_database-server'] 0m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_database-server'] 0m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_exceptions'] 0m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_exceptions'] 0m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_extras'] 0m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_extras'] 0m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy'] 0m20.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy', 'r-bioc-monocle'] 0m20.7s DUMP: r-bioc-monocle: Installed: 2.32.0-1 Candidate: 2.32.0-1 Version table: *** 2.32.0-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy', 'r-bioc-monocle'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-y', 'install', 'r-bioc-monocle'] 0m20.9s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-monocle is already the newest version (2.32.0-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-y', 'install', 'r-bioc-monocle'] 0m20.9s INFO: Running scripts post_install 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_install_exceptions'] 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_install_exceptions'] 0m20.9s INFO: Running scripts post_distupgrade 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_exceptions'] 0m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_exceptions'] 0m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_zz_backports'] 0m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_distupgrade_zz_backports'] 0m21.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m22.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m22.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m23.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m23.2s INFO: Running scripts pre_install 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_database-server'] 0m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_database-server'] 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_exceptions'] 0m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_exceptions'] 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_extras'] 0m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_extras'] 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture'] 0m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture'] 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy'] 0m23.3s 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: 0m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy'] 0m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy', 'r-bioc-monocle'] 0m23.3s DUMP: r-bioc-monocle: Installed: 2.32.0-1 Candidate: 2.32.0-1 Version table: *** 2.32.0-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-cache', 'policy', 'r-bioc-monocle'] 0m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-y', 'install', 'r-bioc-monocle=2.32.0-1'] 0m23.5s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-monocle is already the newest version (2.32.0-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m23.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', '-y', 'install', 'r-bioc-monocle=2.32.0-1'] 0m23.5s INFO: Running scripts post_install 0m23.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_install_exceptions'] 0m23.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_install_exceptions'] 0m23.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m24.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m26.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', '-ac', '--ignore-obsolete'] 0m28.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', '-ac', '--ignore-obsolete'] 0m28.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m28.2s DUMP: 0.15.6 0m28.2s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m28.2s INFO: Running adequate version 0.15.6 now. 0m28.2s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'r-bioc-monocle'] 0m28.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'r-bioc-monocle'] 0m28.2s INFO: Running scripts pre_remove 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m30.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m30.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m30.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m30.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m30.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m30.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_exceptions'] 0m31.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/pre_remove_exceptions'] 0m31.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m31.0s DUMP: install ok installed apt apt 2.9.16 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.37-1 install ok installed bsdutils bsdutils 1:2.40.2-12 install ok installed ca-certificates ca-certificates 20240203 install ok installed coreutils coreutils 9.5-1+b1 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 5.21 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-2 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig fontconfig 2.15.0-1.1+b1 install ok installed fontconfig-config fontconfig-config 2.15.0-1.1+b1 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-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libamd3:amd64 libamd3 1:7.8.3+dfsg-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.16 install ok installed libasan8:amd64 libasan8 14.2.0-8 install ok installed libatomic1:amd64 libatomic1 14.2.0-8 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libblas3:amd64 libblas3 3.12.0-4 install ok installed libblkid1:amd64 libblkid1 2.40.2-12 install ok installed libboost-dev:amd64 libboost-dev 1.83.0.2+b2 install ok installed libboost1.83-dev:amd64 libboost1.83-dev 1.83.0-3.2+b2 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b6 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc-dev-bin libc-dev-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libc6-dev:amd64 libc6-dev 2.40-4 install ok installed libcairo2:amd64 libcairo2 1.18.2-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcolamd3:amd64 libcolamd3 1:7.8.3+dfsg-2 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-2 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.36-5 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl4t64:amd64 libcurl4t64 8.11.0-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-3+b1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.274 install ok installed libdeflate0:amd64 libdeflate0 1.22-1 install ok installed libexpat1:amd64 libexpat1 2.6.4-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-2 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1.1+b1 install ok installed libfreetype6:amd64 libfreetype6 2.13.3+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.15-1 install ok installed libgcc-14-dev:amd64 libgcc-14-dev 14.2.0-8 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.24-2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.24-2 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-8 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.82.2-3 install ok installed libglpk40:amd64 libglpk40 5.0-1+b2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-8 install ok installed libgpg-error0:amd64 libgpg-error0 1.51-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2+b1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 10.1.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libhwasan0:amd64 libhwasan0 14.2.0-8 install ok installed libice6:amd64 libice6 2:1.1.1-1 install ok installed libicu72:amd64 libicu72 72.1-5+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed libitm1:amd64 libitm1 14.2.0-8 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3+b1 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-4 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 3.12.0-4 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-3+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-5 install ok installed liblsan0:amd64 liblsan0 14.2.0-8 install ok installed libltdl7:amd64 libltdl7 2.4.7-8 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-12 install ok installed libncursesw6:amd64 libncursesw6 6.5-2+b1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.64.0-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.55.0+ds-3 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.55.0+ds-3 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.55.0+ds-3 install ok installed libpaper-utils libpaper-utils 1.1.29+b2 install ok installed libpaper1:amd64 libpaper1 1.1.29+b2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-4 install ok installed libperl5.40:amd64 libperl5.40 5.40.0-8 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.44.0-3 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.44-2 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-6 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1+b1 install ok installed libquadmath0:amd64 libquadmath0 14.2.0-8 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-5 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b5 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-8 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-8 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.4.0-0.1+b1 install ok installed libsm6:amd64 libsm6 2:1.2.4-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-12 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++-14-dev:amd64 libstdc++-14-dev 14.2.0-8 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsuitesparseconfig7:amd64 libsuitesparseconfig7 1:7.8.3+dfsg-2 install ok installed libsystemd0:amd64 libsystemd0 257~rc3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.15+dfsg-2 install ok installed libthai-data libthai-data 0.1.29-2 install ok installed libthai0:amd64 libthai0 0.1.29-2+b1 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3+b1 install ok installed libtk8.6:amd64 libtk8.6 8.6.15-1 install ok installed libtsan2:amd64 libtsan2 14.2.0-8 install ok installed libubsan1:amd64 libubsan1 14.2.0-8 install ok installed libudev1:amd64 libudev1 257~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.3-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-12 install ok installed libwebp7:amd64 libwebp7 1.4.0-0.1+b1 install ok installed libx11-6:amd64 libx11-6 2:1.8.10-2 install ok installed libx11-data libx11-data 2:1.8.10-2 install ok installed libxau6:amd64 libxau6 1:1.0.11-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2+b1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2+b1 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b2 install ok installed libxft2:amd64 libxft2 2.3.6-1+b2 install ok installed libxml2:amd64 libxml2 2.12.7+dfsg+really2.9.14-0.2+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b2 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b2 install ok installed libxt6t64:amd64 libxt6t64 1:1.2.1-1.2+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed linux-libc-dev linux-libc-dev 6.12.3-1 install ok installed littler littler 0.3.20-1 install ok installed login login 1:4.16.0-2+really2.40.2-12 install ok installed login.defs login.defs 1:4.16.0-7 install ok installed logsave logsave 1.47.2~rc1-2 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-12 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl openssl 3.3.2-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-7 install ok installed perl perl 5.40.0-8 install ok installed perl-base perl-base 5.40.0-8 install ok installed perl-modules-5.40 perl-modules-5.40 5.40.0-8 install ok installed procps procps 2:4.0.4-6 install ok installed r-base-core r-base-core 4.4.2-1 install ok installed r-bioc-biobase r-bioc-biobase 2.64.0-4 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.50.0-2 install ok installed r-bioc-biocviews r-bioc-biocviews 1.72.0-1 install ok installed r-bioc-graph r-bioc-graph 1.82.0-1 install ok installed r-bioc-hsmmsinglecell r-bioc-hsmmsinglecell 1.24.0-1 install ok installed r-bioc-limma r-bioc-limma 3.60.6+dfsg-1 install ok installed r-bioc-monocle r-bioc-monocle 2.32.0-1 install ok installed r-bioc-rbgl r-bioc-rbgl 1.80.0+dfsg-1 install ok installed r-cran-bh r-cran-bh 1.84.0-1 install ok installed r-cran-biocmanager r-cran-biocmanager 1.30.25+dfsg-1 install ok installed r-cran-bitops r-cran-bitops 1.0-8-1 install ok installed r-cran-cli r-cran-cli 3.6.3-1 install ok installed r-cran-cluster r-cran-cluster 2.1.6-1 install ok installed r-cran-colorspace r-cran-colorspace 2.1-1+dfsg-1 install ok installed r-cran-combinat r-cran-combinat 0.0-8-7 install ok installed r-cran-cpp11 r-cran-cpp11 0.5.0-1 install ok installed r-cran-ddrtree r-cran-ddrtree 0.1.5-2 install ok installed r-cran-dplyr r-cran-dplyr 1.1.4-2 install ok installed r-cran-fansi r-cran-fansi 1.0.5-1 install ok installed r-cran-farver r-cran-farver 2.1.2-1 install ok installed r-cran-fastica r-cran-fastica 1.2-5.1-1 install ok installed r-cran-generics r-cran-generics 0.1.3-1 install ok installed r-cran-ggplot2 r-cran-ggplot2 3.5.1+dfsg-1 install ok installed r-cran-glue r-cran-glue 1.8.0-1 install ok installed r-cran-gridextra r-cran-gridextra 2.3-3 install ok installed r-cran-gtable r-cran-gtable 0.3.6+dfsg-1 install ok installed r-cran-igraph r-cran-igraph 2.0.3-1 install ok installed r-cran-irlba r-cran-irlba 2.3.5.1-4 install ok installed r-cran-isoband r-cran-isoband 0.2.7-1 install ok installed r-cran-labeling r-cran-labeling 0.4.3-1 install ok installed r-cran-lattice r-cran-lattice 0.22-6-1 install ok installed r-cran-leidenbase r-cran-leidenbase 0.1.27-1 install ok installed r-cran-lifecycle r-cran-lifecycle 1.0.4+dfsg-1 install ok installed r-cran-littler r-cran-littler 0.3.20-1 install ok installed r-cran-magrittr r-cran-magrittr 2.0.3-1 install ok installed r-cran-mass r-cran-mass 7.3-61-1 install ok installed r-cran-matrix r-cran-matrix 1.7-1-1 install ok installed r-cran-matrixstats r-cran-matrixstats 1.4.1-1 install ok installed r-cran-mgcv r-cran-mgcv 1.9-1-1 install ok installed r-cran-munsell r-cran-munsell 0.5.1-1 install ok installed r-cran-nlme r-cran-nlme 3.1.166-1 install ok installed r-cran-pheatmap r-cran-pheatmap 1.0.12-2 install ok installed r-cran-pillar r-cran-pillar 1.9.0+dfsg-1 install ok installed r-cran-pkgconfig r-cran-pkgconfig 2.0.3-2 install ok installed r-cran-pkgkitten r-cran-pkgkitten 0.2.4-1 install ok installed r-cran-plyr r-cran-plyr 1.8.9-1 install ok installed r-cran-proxy r-cran-proxy 0.4-27-1 install ok installed r-cran-r6 r-cran-r6 2.5.1-1 install ok installed r-cran-rann r-cran-rann 2.6.2-1 install ok installed r-cran-rcolorbrewer r-cran-rcolorbrewer 1.1-3-1 install ok installed r-cran-rcpp r-cran-rcpp 1.0.13-1-1 install ok installed r-cran-rcppeigen r-cran-rcppeigen 0.3.4.0.2-1 install ok installed r-cran-rcurl r-cran-rcurl 1.98-1.16+dfsg-1 install ok installed r-cran-reshape2 r-cran-reshape2 1.4.4-2 install ok installed r-cran-rlang r-cran-rlang 1.1.4-1 install ok installed r-cran-rtsne r-cran-rtsne 0.17-1 install ok installed r-cran-runit r-cran-runit 0.4.33-1 install ok installed r-cran-scales r-cran-scales 1.3.0-1 install ok installed r-cran-slam r-cran-slam 0.1-55-1 install ok installed r-cran-statmod r-cran-statmod 1.5.0-1 install ok installed r-cran-stringi r-cran-stringi 1.8.4-1 install ok installed r-cran-stringr r-cran-stringr 1.5.1-1 install ok installed r-cran-tibble r-cran-tibble 3.2.1+dfsg-2 install ok installed r-cran-tidyselect r-cran-tidyselect 1.2.1+dfsg-1 install ok installed r-cran-utf8 r-cran-utf8 1.2.4-1 install ok installed r-cran-vctrs r-cran-vctrs 0.6.5-1 install ok installed r-cran-vgam r-cran-vgam 1.1-11-1 install ok installed r-cran-viridis r-cran-viridis 0.6.5-1 install ok installed r-cran-viridislite r-cran-viridislite 0.4.2-2 install ok installed r-cran-withr r-cran-withr 3.0.2+dfsg-1 install ok installed r-cran-xml r-cran-xml 3.99-0.17-1 install ok installed readline-common readline-common 8.2-5 install ok installed rpcsvc-proto rpcsvc-proto 1.4.3-1 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-4 install ok installed ucf ucf 3.0045 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 2.40.2-12 install ok installed x11-common x11-common 1:7.7+23.1 install ok installed xdg-utils xdg-utils 1.2.1-2 install ok installed zip zip 3.0-14 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m31.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m31.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libamd3:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcolamd3:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-14-dev:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-14-dev:amd64', 'libsuitesparseconfig7:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocviews', 'r-bioc-graph', 'r-bioc-hsmmsinglecell', 'r-bioc-limma', 'r-bioc-rbgl', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bitops', 'r-cran-cli', 'r-cran-cluster', 'r-cran-colorspace', 'r-cran-combinat', 'r-cran-cpp11', 'r-cran-ddrtree', 'r-cran-dplyr', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastica', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-igraph', 'r-cran-irlba', 'r-cran-isoband', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-leidenbase', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plyr', 'r-cran-proxy', 'r-cran-r6', 'r-cran-rann', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-reshape2', 'r-cran-rlang', 'r-cran-rtsne', 'r-cran-runit', 'r-cran-scales', 'r-cran-slam', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-tibble', 'r-cran-tidyselect', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridis', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'r-bioc-monocle'] 0m32.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libamd3 libasan8 libatomic1 libblas3 libboost-dev libboost1.83-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcolamd3 libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-14-dev libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libglpk40 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhwasan0 libice6 libicu72 libitm1 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libltdl7 libncursesw6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libquadmath0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libstdc++-14-dev libsuitesparseconfig7 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6t64 linux-libc-dev littler openssl perl perl-modules-5.40 procps r-base-core r-bioc-biobase r-bioc-biocgenerics r-bioc-biocviews r-bioc-graph r-bioc-hsmmsinglecell r-bioc-limma r-bioc-monocle r-bioc-rbgl r-cran-bh r-cran-biocmanager r-cran-bitops r-cran-cli r-cran-cluster r-cran-colorspace r-cran-combinat r-cran-cpp11 r-cran-ddrtree r-cran-dplyr r-cran-fansi r-cran-farver r-cran-fastica r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-igraph r-cran-irlba r-cran-isoband r-cran-labeling r-cran-lattice r-cran-leidenbase r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pheatmap r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr r-cran-proxy r-cran-r6 r-cran-rann r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppeigen r-cran-rcurl r-cran-reshape2 r-cran-rlang r-cran-rtsne r-cran-runit r-cran-scales r-cran-slam r-cran-statmod r-cran-stringi r-cran-stringr r-cran-tibble r-cran-tidyselect r-cran-utf8 r-cran-vctrs r-cran-vgam r-cran-viridis r-cran-viridislite r-cran-withr r-cran-xml readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip 0 upgraded, 0 newly installed, 180 to remove and 0 not upgraded. After this operation, 604 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 ... 39829 files and directories currently installed.) Removing r-bioc-monocle (2.32.0-1) ... Removing r-cran-ddrtree (0.1.5-2) ... Removing r-cran-rcppeigen (0.3.4.0.2-1) ... Removing r-cran-irlba (2.3.5.1-4) ... Removing r-cran-rtsne (0.17-1) ... Removing r-cran-reshape2 (1.4.4-2) ... Removing r-cran-pheatmap (1.0.12-2) ... Removing r-bioc-biocviews (1.72.0-1) ... Removing r-cran-xml (3.99-0.17-1) ... Removing r-cran-leidenbase (0.1.27-1) ... Removing r-cran-igraph (2.0.3-1) ... Removing libglpk40:amd64 (5.0-1+b2) ... Removing libamd3:amd64 (1:7.8.3+dfsg-2) ... Removing r-bioc-rbgl (1.80.0+dfsg-1) ... Removing r-cran-bh (1.84.0-1) ... Removing libboost-dev:amd64 (1.83.0.2+b2) ... Removing libboost1.83-dev:amd64 (1.83.0-3.2+b2) ... Removing libstdc++-14-dev:amd64 (14.2.0-8) ... Removing libgcc-14-dev:amd64 (14.2.0-8) ... Removing libasan8:amd64 (14.2.0-8) ... Removing r-cran-slam (0.1-55-1) ... Removing r-cran-fastica (1.2-5.1-1) ... Removing r-cran-viridis (0.6.5-1) ... Removing r-cran-ggplot2 (3.5.1+dfsg-1) ... Removing r-cran-mgcv (1.9-1-1) ... Removing r-cran-rcurl (1.98-1.16+dfsg-1) ... Removing libc6-dev:amd64 (2.40-4) ... Removing libc-dev-bin (2.40-4) ... Removing libcolamd3:amd64 (1:7.8.3+dfsg-2) ... Removing libcrypt-dev:amd64 (1:4.4.36-5) ... Removing libsuitesparseconfig7:amd64 (1:7.8.3+dfsg-2) ... Removing libhwasan0:amd64 (14.2.0-8) ... Removing r-cran-stringr (1.5.1-1) ... Removing r-cran-stringi (1.8.4-1) ... Removing libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Removing libitm1:amd64 (14.2.0-8) ... Removing liblsan0:amd64 (14.2.0-8) ... Removing libltdl7:amd64 (2.4.7-8) ... Removing libquadmath0:amd64 (14.2.0-8) ... Removing libtsan2:amd64 (14.2.0-8) ... Removing libubsan1:amd64 (14.2.0-8) ... Removing linux-libc-dev (6.12.3-1) ... Removing littler (0.3.20-1) ... Removing r-bioc-biobase (2.64.0-4) ... Removing r-bioc-graph (1.82.0-1) ... Removing r-bioc-limma (3.60.6+dfsg-1) ... Removing r-bioc-hsmmsinglecell (1.24.0-1) ... Removing r-bioc-biocgenerics (0.50.0-2) ... Removing r-cran-biocmanager (1.30.25+dfsg-1) ... Removing r-cran-bitops (1.0-8-1) ... Removing r-cran-dplyr (1.1.4-2) ... Removing r-cran-tidyselect (1.2.1+dfsg-1) ... Removing r-cran-tibble (3.2.1+dfsg-2) ... Removing r-cran-pillar (1.9.0+dfsg-1) ... Removing r-cran-cluster (2.1.6-1) ... Removing r-cran-combinat (0.0-8-7) ... Removing r-cran-cpp11 (0.5.0-1) ... Removing r-cran-fansi (1.0.5-1) ... Removing r-cran-generics (0.1.3-1) ... Removing r-cran-gridextra (2.3-3) ... Removing r-cran-gtable (0.3.6+dfsg-1) ... Removing r-cran-isoband (0.2.7-1) ... Removing r-cran-nlme (3.1.166-1) ... Removing r-cran-magrittr (2.0.3-1) ... Removing r-cran-mass (7.3-61-1) ... Removing r-cran-matrixstats (1.4.1-1) ... Removing r-cran-pkgconfig (2.0.3-2) ... Removing r-cran-plyr (1.8.9-1) ... Removing r-cran-proxy (0.4-27-1) ... Removing r-cran-rann (2.6.2-1) ... Removing r-cran-runit (0.4.33-1) ... Removing r-cran-statmod (1.5.0-1) ... Removing r-cran-utf8 (1.2.4-1) ... Removing r-cran-vgam (1.1-11-1) ... Removing r-cran-withr (3.0.2+dfsg-1) ... Removing rpcsvc-proto (1.4.3-1) ... Removing r-cran-matrix (1.7-1-1) ... Removing r-cran-rcpp (1.0.13-1-1) ... Removing r-cran-scales (1.3.0-1) ... Removing r-cran-rcolorbrewer (1.1-3-1) ... Removing r-cran-vctrs (0.6.5-1) ... Removing r-cran-munsell (0.5.1-1) ... Removing r-cran-colorspace (2.1-1+dfsg-1) ... Removing r-cran-farver (2.1.2-1) ... Removing r-cran-lifecycle (1.0.4+dfsg-1) ... Removing r-cran-glue (1.8.0-1) ... Removing r-cran-labeling (0.4.3-1) ... Removing r-cran-lattice (0.22-6-1) ... Removing r-cran-littler (0.3.20-1) ... Removing r-cran-pkgkitten (0.2.4-1) ... Removing r-cran-r6 (2.5.1-1) ... Removing r-cran-rlang (1.1.4-1) ... Removing r-cran-viridislite (0.4.2-2) ... Removing r-cran-cli (3.6.3-1) ... Removing r-base-core (4.4.2-1) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.55.0+ds-3) ... Removing libpangoft2-1.0-0:amd64 (1.55.0+ds-3) ... Removing libpango-1.0-0:amd64 (1.55.0+ds-3) ... Removing fontconfig (2.15.0-1.1+b1) ... Removing libtk8.6:amd64 (8.6.15-1) ... Removing libxft2:amd64 (2.3.6-1+b2) ... Removing libcairo2:amd64 (1.18.2-2) ... Removing libfontconfig1:amd64 (2.15.0-1.1+b1) ... Removing fontconfig-config (2.15.0-1.1+b1) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing libharfbuzz0b:amd64 (10.1.0-1) ... Removing libglib2.0-0t64:amd64 (2.82.2-3) ... Removing libatomic1:amd64 (14.2.0-8) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing libcurl4t64:amd64 (8.11.0-1) ... Removing libbrotli1:amd64 (1.1.0-2+b6) ... Removing libthai0:amd64 (0.1.29-2+b1) ... Removing libdatrie1:amd64 (0.2.13-3+b1) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.22-1) ... Removing libexpat1:amd64 (2.6.4-1) ... Removing libfribidi0:amd64 (1.0.15-1) ... Removing libpaper-utils (1.1.29+b2) ... Removing libpaper1:amd64 (1.1.29+b2) ... Removing ucf (3.0045) ... Removing perl (5.40.0-8) ... Removing libperl5.40:amd64 (5.40.0-8) ... Removing libgdbm-compat4t64:amd64 (1.24-2) ... Removing libgdbm6t64:amd64 (1.24-2) ... Removing liblapack3:amd64 (3.12.0-4) ... Removing libgfortran5:amd64 (14.2.0-8) ... Removing libgomp1:amd64 (14.2.0-8) ... Removing libgraphite2-3:amd64 (1.3.14-2+b1) ... Removing libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... 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+b1) ... Removing libsm6:amd64 (2:1.2.4-1) ... Removing libice6:amd64 (2:1.1.1-1) ... Removing libicu72:amd64 (72.1-5+b1) ... Removing libjbig0:amd64 (2.1-6.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-4) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Removing liblerc4:amd64 (4.0.0+ds-5) ... Removing procps (2:4.0.4-6) ... Removing libncursesw6:amd64 (6.5-2+b1) ... Removing libnghttp2-14:amd64 (1.64.0-1) ... Removing libpixman-1-0:amd64 (0.44.0-3) ... Removing libpng16-16t64:amd64 (1.6.44-2) ... Removing libproc2-0:amd64 (2:4.0.4-6) ... Removing libpsl5t64:amd64 (0.21.2-1.1+b1) ... 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+b5) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Removing libwebp7:amd64 (1.4.0-0.1+b1) ... Removing libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Removing libssh2-1t64:amd64 (1.11.1-1) ... Removing libtcl8.6:amd64 (8.6.15+dfsg-2) ... Removing libthai-data (0.1.29-2) ... Removing libtirpc-common (1.3.4+ds-1.3) ... Removing libxss1:amd64 (1:1.2.3-1+b2) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b2) ... Removing libxcb-shm0:amd64 (1.17.0-2+b1) ... Removing libxcb-render0:amd64 (1.17.0-2+b1) ... Removing libxext6:amd64 (2:1.3.4-1+b2) ... Removing openssl (3.3.2-2) ... Removing perl-modules-5.40 (5.40.0-8) ... Removing readline-common (8.2-5) ... 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 (1.2.1-2) ... Removing zip (3.0-14) ... Removing libblas3:amd64 (3.12.0-4) ... Removing libx11-6:amd64 (2:1.8.10-2) ... Removing libx11-data (2:1.8.10-2) ... Removing libxcb1:amd64 (1.17.0-2+b1) ... Removing libxau6:amd64 (1:1.0.11-1) ... Removing libxdmcp6:amd64 (1:1.1.5-1) ... Processing triggers for libc-bin (2.40-4) ... 0m32.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libamd3:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcolamd3:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-14-dev:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-14-dev:amd64', 'libsuitesparseconfig7:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocviews', 'r-bioc-graph', 'r-bioc-hsmmsinglecell', 'r-bioc-limma', 'r-bioc-rbgl', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bitops', 'r-cran-cli', 'r-cran-cluster', 'r-cran-colorspace', 'r-cran-combinat', 'r-cran-cpp11', 'r-cran-ddrtree', 'r-cran-dplyr', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastica', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-igraph', 'r-cran-irlba', 'r-cran-isoband', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-leidenbase', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plyr', 'r-cran-proxy', 'r-cran-r6', 'r-cran-rann', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-reshape2', 'r-cran-rlang', 'r-cran-rtsne', 'r-cran-runit', 'r-cran-scales', 'r-cran-slam', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-tibble', 'r-cran-tidyselect', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridis', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'r-bioc-monocle'] 0m32.7s INFO: Running scripts post_remove 0m32.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_remove_exceptions'] 0m32.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_remove_exceptions'] 0m32.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libamd3:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcolamd3:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-14-dev:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-14-dev:amd64', 'libsuitesparseconfig7:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocviews', 'r-bioc-graph', 'r-bioc-hsmmsinglecell', 'r-bioc-limma', 'r-bioc-rbgl', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bitops', 'r-cran-cli', 'r-cran-cluster', 'r-cran-colorspace', 'r-cran-combinat', 'r-cran-cpp11', 'r-cran-ddrtree', 'r-cran-dplyr', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastica', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-igraph', 'r-cran-irlba', 'r-cran-isoband', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-leidenbase', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plyr', 'r-cran-proxy', 'r-cran-r6', 'r-cran-rann', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-reshape2', 'r-cran-rlang', 'r-cran-rtsne', 'r-cran-runit', 'r-cran-scales', 'r-cran-slam', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-tibble', 'r-cran-tidyselect', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridis', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip'] 0m33.1s DUMP: (Reading database ... 5195 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+b1) ... Purging configuration files for fontconfig-config (2.15.0-1.1+b1) ... 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 libamd3 which isn't installed dpkg: warning: ignoring request to remove libasan8 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libboost-dev which isn't installed dpkg: warning: ignoring request to remove libboost1.83-dev which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcolamd3 which isn't installed Purging configuration files for libcrypt-dev:amd64 (1:4.4.36-5) ... dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgcc-14-dev which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which isn't installed dpkg: warning: ignoring request to remove libgdbm6t64 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.82.2-3) ... dpkg: warning: ignoring request to remove libglpk40 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 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 libitm1 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove 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 libltdl7 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 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+b2) ... dpkg: warning: ignoring request to remove libperl5.40 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libproc2-0 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 librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsm6 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libstdc++-14-dev which isn't installed dpkg: warning: ignoring request to remove libsuitesparseconfig7 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) ... Purging configuration files for libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... 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 libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libxt6t64 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove littler which isn't installed Purging configuration files for openssl (3.3.2-2) ... Purging configuration files for perl (5.40.0-8) ... dpkg: warning: ignoring request to remove perl-modules-5.40 which isn't installed Purging configuration files for procps (2:4.0.4-6) ... Purging configuration files for r-base-core (4.4.2-1) ... 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-biocviews which isn't installed dpkg: warning: ignoring request to remove r-bioc-graph which isn't installed dpkg: warning: ignoring request to remove r-bioc-hsmmsinglecell 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-rbgl which isn't installed dpkg: warning: ignoring request to remove r-cran-bh which isn't installed dpkg: warning: ignoring request to remove r-cran-biocmanager which isn't installed dpkg: warning: ignoring request to remove r-cran-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-cluster 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-combinat 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-ddrtree which isn't installed dpkg: warning: ignoring request to remove r-cran-dplyr which isn't installed dpkg: warning: ignoring request to remove r-cran-fansi which isn't installed dpkg: warning: ignoring request to remove r-cran-farver which isn't installed dpkg: warning: ignoring request to remove r-cran-fastica which isn't installed dpkg: warning: ignoring request to remove r-cran-generics which isn't installed dpkg: warning: ignoring request to remove r-cran-ggplot2 which isn't installed dpkg: warning: ignoring request to remove r-cran-glue which isn't installed dpkg: warning: ignoring request to remove r-cran-gridextra which isn't installed dpkg: warning: ignoring request to remove r-cran-gtable which isn't installed dpkg: warning: ignoring request to remove r-cran-igraph which isn't installed dpkg: warning: ignoring request to remove r-cran-irlba which isn't installed dpkg: warning: ignoring request to remove r-cran-isoband which isn't installed dpkg: warning: ignoring request to remove r-cran-labeling 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-leidenbase which isn't installed dpkg: warning: ignoring request to remove r-cran-lifecycle which isn't installed dpkg: warning: ignoring request to remove r-cran-littler which isn't installed dpkg: warning: ignoring request to remove r-cran-magrittr which isn't installed dpkg: warning: ignoring request to remove r-cran-mass which isn't installed dpkg: warning: ignoring request to remove r-cran-matrix which isn't installed dpkg: warning: ignoring request to remove r-cran-matrixstats which isn't installed dpkg: warning: ignoring request to remove r-cran-mgcv which isn't installed dpkg: warning: ignoring request to remove r-cran-munsell which isn't installed dpkg: warning: ignoring request to remove r-cran-nlme which isn't installed dpkg: warning: ignoring request to remove r-cran-pheatmap which isn't installed dpkg: warning: ignoring request to remove r-cran-pillar which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgconfig which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgkitten which isn't installed dpkg: warning: ignoring request to remove r-cran-plyr which isn't installed dpkg: warning: ignoring request to remove r-cran-proxy 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-rann 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-rcppeigen 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-reshape2 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-rtsne which isn't installed dpkg: warning: ignoring request to remove r-cran-runit 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-slam which isn't installed dpkg: warning: ignoring request to remove r-cran-statmod which isn't installed dpkg: warning: ignoring request to remove r-cran-stringi which isn't installed dpkg: warning: ignoring request to remove r-cran-stringr which isn't installed dpkg: warning: ignoring request to remove r-cran-tibble which isn't installed dpkg: warning: ignoring request to remove r-cran-tidyselect which isn't installed dpkg: warning: ignoring request to remove r-cran-utf8 which isn't installed dpkg: warning: ignoring request to remove r-cran-vctrs which isn't installed dpkg: warning: ignoring request to remove r-cran-vgam which isn't installed dpkg: warning: ignoring request to remove r-cran-viridis 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-withr which isn't installed dpkg: warning: ignoring request to remove r-cran-xml 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 (3.0045) ... Purging configuration files for unzip (6.0-28) ... Purging configuration files for x11-common (1:7.7+23.1) ... dpkg: warning: ignoring request to remove xdg-utils which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed 0m33.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libamd3:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcolamd3:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-14-dev:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-14-dev:amd64', 'libsuitesparseconfig7:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base-core', 'r-bioc-biobase', 'r-bioc-biocgenerics', 'r-bioc-biocviews', 'r-bioc-graph', 'r-bioc-hsmmsinglecell', 'r-bioc-limma', 'r-bioc-rbgl', 'r-cran-bh', 'r-cran-biocmanager', 'r-cran-bitops', 'r-cran-cli', 'r-cran-cluster', 'r-cran-colorspace', 'r-cran-combinat', 'r-cran-cpp11', 'r-cran-ddrtree', 'r-cran-dplyr', 'r-cran-fansi', 'r-cran-farver', 'r-cran-fastica', 'r-cran-generics', 'r-cran-ggplot2', 'r-cran-glue', 'r-cran-gridextra', 'r-cran-gtable', 'r-cran-igraph', 'r-cran-irlba', 'r-cran-isoband', 'r-cran-labeling', 'r-cran-lattice', 'r-cran-leidenbase', 'r-cran-lifecycle', 'r-cran-littler', 'r-cran-magrittr', 'r-cran-mass', 'r-cran-matrix', 'r-cran-matrixstats', 'r-cran-mgcv', 'r-cran-munsell', 'r-cran-nlme', 'r-cran-pheatmap', 'r-cran-pillar', 'r-cran-pkgconfig', 'r-cran-pkgkitten', 'r-cran-plyr', 'r-cran-proxy', 'r-cran-r6', 'r-cran-rann', 'r-cran-rcolorbrewer', 'r-cran-rcpp', 'r-cran-rcppeigen', 'r-cran-rcurl', 'r-cran-reshape2', 'r-cran-rlang', 'r-cran-rtsne', 'r-cran-runit', 'r-cran-scales', 'r-cran-slam', 'r-cran-statmod', 'r-cran-stringi', 'r-cran-stringr', 'r-cran-tibble', 'r-cran-tidyselect', 'r-cran-utf8', 'r-cran-vctrs', 'r-cran-vgam', 'r-cran-viridis', 'r-cran-viridislite', 'r-cran-withr', 'r-cran-xml', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip'] 0m33.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--purge', 'r-bioc-monocle'] 0m33.1s DUMP: dpkg: warning: ignoring request to remove r-bioc-monocle which isn't installed 0m33.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--purge', 'r-bioc-monocle'] 0m33.1s INFO: Running scripts post_purge 0m33.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_purge_exceptions'] 0m33.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_purge_exceptions'] 0m33.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--purge', '--pending'] 0m33.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--purge', '--pending'] 0m33.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--remove', '--pending'] 0m33.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg', '--remove', '--pending'] 0m33.1s INFO: Running scripts post_test 0m33.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_test_exceptions'] 0m33.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'tmp/scripts/post_test_exceptions'] 0m33.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m33.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m33.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg-divert', '--list'] 0m33.3s DUMP: 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 /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 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 /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m33.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'dpkg-divert', '--list'] 0m33.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'clean'] 0m33.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpw61dclyr', 'apt-get', 'clean'] 0m33.4s DEBUG: Recording chroot state 0m33.7s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fontconfig-config, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/ owned by: fontconfig-config, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned 0m34.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/shm'] 0m34.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/shm'] 0m34.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/console'] 0m34.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/console'] 0m34.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/ptmx'] 0m34.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/ptmx'] 0m34.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/pts'] 0m34.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/dev/pts'] 0m34.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/proc'] 0m34.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpw61dclyr/proc'] 0m34.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m34.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpw61dclyr'] 0m34.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpw61dclyr 0m34.2s INFO: PASS: Upgrading between Debian distributions. 0m34.2s INFO: PASS: All tests. 0m34.2s INFO: piuparts run ends. ret=0 End: 2024-12-07 15:39:44 GMT