Start: 2024-12-13 15:11:05 GMT [testing] Package: r-bioc-hdf5array Version: 1.32.1-1 Installed-Size: 9057 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-delayedarray (>= 0.30.1), r-bioc-rhdf5 (>= 2.48.0), r-cran-matrix, r-bioc-rhdf5filters (>= 1.16.0), r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-bioc-iranges (>= 2.38.1), r-bioc-s4arrays (>= 1.4.1), r-bioc-rhdf5lib (>= 1.26.0), libc6 (>= 2.14), libhdf5-103-1t64, libhdf5-hl-100t64 Suggests: r-bioc-biocparallel (>= 1.38.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-experimenthub (>= 2.12.0), r-bioc-genomicfeatures (>= 1.56.0), r-cran-runit, r-bioc-singlecellexperiment (>= 1.26.0), r-bioc-delayedmatrixstats (>= 1.26.0), r-bioc-genefilter (>= 1.86.0) Description: HDF5 backend for DelayedArray objects Homepage: https://bioconductor.org/packages/HDF5Array/ Description-md5: 75935fc5e97c3a902de41900a4e583c7 Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-hdf5array/r-bioc-hdf5array_1.32.1-1_amd64.deb Size: 8772240 MD5sum: 91163042c384fa23fe9389240863e832 SHA256: 4877fbaf6656a4c8a7ee70ee9e4e7c526c9c4d6035f65f88b84eeb4b2c758353 [sid] Package: r-bioc-hdf5array Source: r-bioc-hdf5array (1.32.1-1) Version: 1.32.1-1+b1 Installed-Size: 9062 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-delayedarray (>= 0.30.1), r-bioc-rhdf5 (>= 2.48.0), r-cran-matrix, r-bioc-rhdf5filters (>= 1.16.0), r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-bioc-iranges (>= 2.38.1), r-bioc-s4arrays (>= 1.4.1), r-bioc-rhdf5lib (>= 1.26.0), libc6 (>= 2.14), libhdf5-310 (>= 1.14.4.3), libhdf5-hl-310 Suggests: r-bioc-biocparallel (>= 1.38.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-experimenthub (>= 2.12.0), r-bioc-genomicfeatures (>= 1.56.0), r-cran-runit, r-bioc-singlecellexperiment (>= 1.26.0), r-bioc-delayedmatrixstats (>= 1.26.0), r-bioc-genefilter (>= 1.86.0) Description: HDF5 backend for DelayedArray objects Homepage: https://bioconductor.org/packages/HDF5Array/ Description-md5: 75935fc5e97c3a902de41900a4e583c7 Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-hdf5array/r-bioc-hdf5array_1.32.1-1+b1_amd64.deb Size: 8773264 MD5sum: 672d46398b79227f4bc1215f925a5f89 SHA256: 86a59fc0f509c9b715b5c9f66c9296fa35269e23a8ab9cfd2167b3c658a2c81c 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-hdf5array=1.32.1-1+b1 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-hdf5array=1.32.1-1+b1 0m0.0s INFO: Running on: Linux piu-slave-conova-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/tmpm9wgmtym 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpm9wgmtym 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/proc'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/proc'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/pts'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/pts'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/ptmx'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/ptmx'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/console'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/console'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/shm'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/shm'] 0m0.3s 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/tmpm9wgmtym/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'update'] 0m2.2s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [172 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9351 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6276 kB] Fetched 15.8 MB in 1s (13.2 MB/s) Reading package lists... 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'update'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-yf', 'dist-upgrade'] 0m2.8s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-yf', 'dist-upgrade'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.3s DUMP: 8870e87caea38e16efb3c1bf6a9296cd - 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.3s INFO: Running scripts post_setup 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_dummy_users'] 0m3.9s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_dummy_users'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_forbid_home'] 0m3.9s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_forbid_home'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.0s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_minimize'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_minimize'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_zz_backports'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_setup_zz_backports'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.0s 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 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 1.12-1.2 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 2.40.2-12 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 1.51-2 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 2.40.2-12 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 10.44-5 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 2.40.2-12 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 1.3-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-12 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+really2.40.2-12 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-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-7 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 2.40.2-12 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.0s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m4.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m4.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m4.3s INFO: Running scripts is_testable 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/is_testable_uninstallable'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/is_testable_uninstallable'] 0m4.3s INFO: Running scripts pre_test 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_test_root_password'] 0m4.4s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_test_root_password'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-hdf5array'] 0m4.7s DUMP: Package: r-bioc-hdf5array Version: 1.32.1-1 Installed-Size: 9057 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-delayedarray (>= 0.30.1), r-bioc-rhdf5 (>= 2.48.0), r-cran-matrix, r-bioc-rhdf5filters (>= 1.16.0), r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-bioc-iranges (>= 2.38.1), r-bioc-s4arrays (>= 1.4.1), r-bioc-rhdf5lib (>= 1.26.0), libc6 (>= 2.14), libhdf5-103-1t64, libhdf5-hl-100t64 Suggests: r-bioc-biocparallel (>= 1.38.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-experimenthub (>= 2.12.0), r-bioc-genomicfeatures (>= 1.56.0), r-cran-runit, r-bioc-singlecellexperiment (>= 1.26.0), r-bioc-delayedmatrixstats (>= 1.26.0), r-bioc-genefilter (>= 1.86.0) Description-en: HDF5 backend for DelayedArray objects Implements the HDF5Array and TENxMatrix classes, 2 convenient and memory-efficient array-like containers for on-disk representation of HDF5 datasets. HDF5Array is for datasets that use the conventional (i.e. dense) HDF5 representation. TENxMatrix is for datasets that use the HDF5-based sparse matrix representation from 10x Genomics (e.g. the 1.3 Million Brain Cell Dataset). Both containers being DelayedArray extensions, they support all operations supported by DelayedArray objects. These operations can be either delayed or block-processed. Description-md5: 75935fc5e97c3a902de41900a4e583c7 Homepage: https://bioconductor.org/packages/HDF5Array/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-hdf5array/r-bioc-hdf5array_1.32.1-1_amd64.deb Size: 8772240 MD5sum: 91163042c384fa23fe9389240863e832 SHA256: 4877fbaf6656a4c8a7ee70ee9e4e7c526c9c4d6035f65f88b84eeb4b2c758353 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-hdf5array'] 0m4.7s INFO: apt-cache knows about the following packages: r-bioc-hdf5array 0m4.7s INFO: Running scripts pre_install 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_database-server'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_database-server'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_exceptions'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_exceptions'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_extras'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_extras'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy'] 0m4.8s 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: 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy', 'r-bioc-hdf5array'] 0m4.9s DUMP: r-bioc-hdf5array: Installed: (none) Candidate: 1.32.1-1 Version table: 1.32.1-1 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy', 'r-bioc-hdf5array'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-y', 'install', 'r-bioc-hdf5array'] 0m22.4s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates comerr-dev fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono hdf5-helpers krb5-multidev libaec-dev libaec0 libatomic1 libblas3 libblosc1 libbrotli-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4-openssl-dev libcurl4t64 libdatrie1 libdeflate0 libevent-2.1-7t64 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libgssapi-krb5-2 libgssrpc4t64 libharfbuzz0b libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libice6 libicu72 libidn2-dev libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64 libkeyutils1 libkrb5-3 libkrb5-dev libkrb5support0 liblapack3 libldap-2.5-0 libldap-dev liblerc4 libncursesw6 libnghttp2-14 libnghttp2-dev libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpkgconf3 libpng16-16t64 libproc2-0 libpsl-dev libpsl5t64 libreadline8t64 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev libssh2-1t64 libssl-dev libsz2 libtasn1-6-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libunbound8 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 libzstd-dev linux-libc-dev nettle-dev openssl perl perl-modules-5.40 pkgconf pkgconf-bin procps r-base-core r-bioc-biocgenerics r-bioc-delayedarray r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-crayon r-cran-lattice r-cran-matrix r-cran-matrixstats readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev Suggested packages: doc-base krb5-doc libc-devtools glibc-doc manpages-dev dpkg-dev libcurl4-doc libidn-dev gdbm-l10n low-memory-monitor gmp-doc libgmp10-doc libmpfr-dev dns-root-data gnutls-bin gnutls-doc krb5-user libhdf5-doc libnghttp2-doc p11-kit-doc libssl-doc tcl8.6 tk8.6 perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-bioc-biobase r-bioc-genomicranges r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-runit r-bioc-biocparallel r-bioc-genefilter r-bioc-summarizedexperiment r-cran-lobstr r-bioc-delayedmatrixstats r-cran-knitr r-cran-rmarkdown r-bioc-biocstyle r-bioc-experimenthub r-bioc-genomicfeatures r-bioc-singlecellexperiment r-bioc-genomicalignments r-bioc-sparsematrixstats r-cran-testthat r-cran-bit64 r-cran-bench r-cran-dplyr r-cran-ggplot2 r-cran-mockery r-cran-tinytest r-bioc-shortread r-bioc-graph r-cran-data.table r-cran-rstudioapi readline-doc Recommended packages: manpages manpages-dev libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules libtasn1-doc netbase psmisc linux-sysctl-defaults r-recommended r-base-dev r-doc-html r-cran-testthat r-cran-withr r-cran-mockery r-cran-base64enc r-cran-ggplot2 r-cran-knitr r-cran-markdown r-cran-microbenchmark r-cran-r.devices r-cran-r.rsp libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: ca-certificates comerr-dev fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono hdf5-helpers krb5-multidev libaec-dev libaec0 libatomic1 libblas3 libblosc1 libbrotli-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4-openssl-dev libcurl4t64 libdatrie1 libdeflate0 libevent-2.1-7t64 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libgssapi-krb5-2 libgssrpc4t64 libharfbuzz0b libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libice6 libicu72 libidn2-dev libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64 libkeyutils1 libkrb5-3 libkrb5-dev libkrb5support0 liblapack3 libldap-2.5-0 libldap-dev liblerc4 libncursesw6 libnghttp2-14 libnghttp2-dev libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpkgconf3 libpng16-16t64 libproc2-0 libpsl-dev libpsl5t64 libreadline8t64 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev libssh2-1t64 libssl-dev libsz2 libtasn1-6-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libunbound8 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 libzstd-dev linux-libc-dev nettle-dev openssl perl perl-modules-5.40 pkgconf pkgconf-bin procps r-base-core r-bioc-biocgenerics r-bioc-delayedarray r-bioc-hdf5array r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-crayon r-cran-lattice r-cran-matrix r-cran-matrixstats readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 155 newly installed, 0 to remove and 0 not upgraded. Need to get 114 MB of archives. After this operation, 318 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libncursesw6 amd64 6.5-2+b1 [136 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 perl-modules-5.40 all 5.40.0-8 [3015 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libperl5.40 amd64 5.40.0-8 [4320 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 perl amd64 5.40.0-8 [267 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0045 [45.2 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libc-dev-bin amd64 2.40-4 [52.0 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 linux-libc-dev all 6.11.10-1 [2461 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libcrypt-dev amd64 1:4.4.36-5 [118 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libc6-dev amd64 2.40-4 [1954 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 comerr-dev amd64 2.1-1.47.2~rc1-2 [55.4 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 hdf5-helpers amd64 1.10.10+repack-5+b1 [23.8 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get:33 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libgssrpc4t64 amd64 1.21.3-3 [59.5 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libkadm5clnt-mit12 amd64 1.21.3-3 [41.7 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libkdb5-10t64 amd64 1.21.3-3 [42.0 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libkadm5srv-mit12 amd64 1.21.3-3 [53.5 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 krb5-multidev amd64 1.21.3-3 [126 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B] Get:42 http://deb.debian.org/debian trixie/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-8 [9280 B] Get:44 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-4 [152 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.1-1+b1 [29.6 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libblosc1 amd64 1.21.5+ds-1+b2 [49.5 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libbrotli-dev amd64 1.1.0-2+b6 [316 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.11.0-1 [351 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 libidn2-dev amd64 2.3.7-2+b1 [123 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 libkrb5-dev amd64 1.21.3-3 [15.7 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 libldap-dev amd64 2.5.18+dfsg-3+b1 [303 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-3 [329 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-3 [642 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libunbound8 amd64 1.22.0-1 [598 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libgnutls-dane0t64 amd64 3.8.8-2 [449 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libgnutls-openssl27t64 amd64 3.8.8-2 [449 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libp11-kit-dev amd64 0.25.5-2+b1 [208 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libtasn1-6-dev amd64 4.19.0-3+b3 [98.9 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 nettle-dev amd64 3.10-1+b1 [1317 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 libgnutls28-dev amd64 3.8.8-2 [1391 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 libssl-dev amd64 3.3.2-2 [2742 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 libcurl4-openssl-dev amd64 8.11.0-1 [461 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.3-2 [1501 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-8 [137 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.1.0-1 [478 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-5+b1 [1254 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-5+b1 [131 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-5+b1 [90.1 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-5+b1 [64.2 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-5+b1 [41.1 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-5+b1 [21.7 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3+b1 [292 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 libjpeg-dev amd64 1:2.1.5-3+b1 [72.2 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 libhdf5-dev amd64 1.10.10+repack-5+b1 [2656 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.1.1-1 [65.4 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-4 [2450 kB] Get:114 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.55.0+ds-3 [225 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.55.0+ds-3 [54.6 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.55.0+ds-3 [35.4 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 libpaper1 amd64 1.1.29+b2 [12.8 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 1.1.29+b2 [9236 B] Get:122 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.4-1 [35.2 kB] Get:125 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1042 kB] Get:126 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get:127 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b2 [54.5 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b2 [17.0 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.15-1 [791 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2+b1 [188 kB] Get:134 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 unzip amd64 6.0-28 [166 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 xdg-utils all 1.2.1-2 [75.8 kB] Get:137 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.2-1 [28.3 MB] Get:138 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocgenerics all 0.50.0-2 [607 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-1-1 [4138 kB] Get:141 http://deb.debian.org/debian trixie/main amd64 r-cran-matrixstats amd64 1.4.1-1 [510 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 r-bioc-matrixgenerics all 1.16.0-2 [423 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 r-bioc-s4vectors amd64 0.42.1+dfsg-2 [1894 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 r-bioc-iranges amd64 2.38.1-1 [2305 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 r-cran-abind all 1.4-8-1 [68.1 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get:147 http://deb.debian.org/debian trixie/main amd64 r-bioc-s4arrays amd64 1.4.1+dfsg-1 [524 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 r-bioc-zlibbioc all 1.50.0+dfsg-2 [9876 B] Get:149 http://deb.debian.org/debian trixie/main amd64 r-bioc-xvector amd64 0.44.0-1 [622 kB] Get:150 http://deb.debian.org/debian trixie/main amd64 r-bioc-sparsearray amd64 1.4.8+dfsg-1 [1254 kB] Get:151 http://deb.debian.org/debian trixie/main amd64 r-bioc-delayedarray amd64 0.30.1+dfsg-1 [1847 kB] Get:152 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5lib amd64 1.26.0+dfsg-1 [104 kB] Get:153 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5filters amd64 1.16.0+dfsg-1 [139 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 r-bioc-rhdf5 amd64 2.48.0+dfsg-3 [857 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 r-bioc-hdf5array amd64 1.32.1-1 [8772 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 114 MB in 1s (137 MB/s) Selecting previously unselected package libncursesw6:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5141 files and directories currently installed.) Preparing to unpack .../000-libncursesw6_6.5-2+b1_amd64.deb ... Unpacking libncursesw6:amd64 (6.5-2+b1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../001-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 .../002-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package readline-common. Preparing to unpack .../003-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package perl-modules-5.40. Preparing to unpack .../007-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 .../008-libgdbm6t64_1.24-2_amd64.deb ... Unpacking libgdbm6t64:amd64 (1.24-2) ... Selecting previously unselected package libgdbm-compat4t64:amd64. Preparing to unpack .../009-libgdbm-compat4t64_1.24-2_amd64.deb ... Unpacking libgdbm-compat4t64:amd64 (1.24-2) ... Selecting previously unselected package libperl5.40:amd64. Preparing to unpack .../010-libperl5.40_5.40.0-8_amd64.deb ... Unpacking libperl5.40:amd64 (5.40.0-8) ... Selecting previously unselected package perl. Preparing to unpack .../011-perl_5.40.0-8_amd64.deb ... Unpacking perl (5.40.0-8) ... Selecting previously unselected package ucf. Preparing to unpack .../012-ucf_3.0045_all.deb ... Moving old data out of the way Unpacking ucf (3.0045) ... Selecting previously unselected package libc-dev-bin. Preparing to unpack .../013-libc-dev-bin_2.40-4_amd64.deb ... Unpacking libc-dev-bin (2.40-4) ... Selecting previously unselected package linux-libc-dev. Preparing to unpack .../014-linux-libc-dev_6.11.10-1_all.deb ... Unpacking linux-libc-dev (6.11.10-1) ... Selecting previously unselected package libcrypt-dev:amd64. Preparing to unpack .../015-libcrypt-dev_1%3a4.4.36-5_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.36-5) ... Selecting previously unselected package rpcsvc-proto. Preparing to unpack .../016-rpcsvc-proto_1.4.3-1_amd64.deb ... Unpacking rpcsvc-proto (1.4.3-1) ... Selecting previously unselected package libc6-dev:amd64. Preparing to unpack .../017-libc6-dev_2.40-4_amd64.deb ... Unpacking libc6-dev:amd64 (2.40-4) ... Selecting previously unselected package comerr-dev:amd64. Preparing to unpack .../018-comerr-dev_2.1-1.47.2~rc1-2_amd64.deb ... Unpacking comerr-dev:amd64 (2.1-1.47.2~rc1-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../019-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../020-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 .../021-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 .../022-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 .../023-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 .../024-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../025-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 .../026-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 .../027-fontconfig_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig (2.15.0-1.1+b1) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../028-hdf5-helpers_1.10.10+repack-5+b1_amd64.deb ... Unpacking hdf5-helpers (1.10.10+repack-5+b1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../029-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../030-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../031-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../032-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../033-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libgssrpc4t64:amd64. Preparing to unpack .../034-libgssrpc4t64_1.21.3-3_amd64.deb ... Unpacking libgssrpc4t64:amd64 (1.21.3-3) ... Selecting previously unselected package libkadm5clnt-mit12:amd64. Preparing to unpack .../035-libkadm5clnt-mit12_1.21.3-3_amd64.deb ... Unpacking libkadm5clnt-mit12:amd64 (1.21.3-3) ... Selecting previously unselected package libkdb5-10t64:amd64. Preparing to unpack .../036-libkdb5-10t64_1.21.3-3_amd64.deb ... Unpacking libkdb5-10t64:amd64 (1.21.3-3) ... Selecting previously unselected package libkadm5srv-mit12:amd64. Preparing to unpack .../037-libkadm5srv-mit12_1.21.3-3_amd64.deb ... Unpacking libkadm5srv-mit12:amd64 (1.21.3-3) ... Selecting previously unselected package krb5-multidev:amd64. Preparing to unpack .../038-krb5-multidev_1.21.3-3_amd64.deb ... Unpacking krb5-multidev:amd64 (1.21.3-3) ... Selecting previously unselected package libaec0:amd64. Preparing to unpack .../039-libaec0_1.1.3-1+b1_amd64.deb ... Unpacking libaec0:amd64 (1.1.3-1+b1) ... Selecting previously unselected package libsz2:amd64. Preparing to unpack .../040-libsz2_1.1.3-1+b1_amd64.deb ... Unpacking libsz2:amd64 (1.1.3-1+b1) ... Selecting previously unselected package libaec-dev:amd64. Preparing to unpack .../041-libaec-dev_1.1.3-1+b1_amd64.deb ... Unpacking libaec-dev:amd64 (1.1.3-1+b1) ... Selecting previously unselected package libatomic1:amd64. Preparing to unpack .../042-libatomic1_14.2.0-8_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-8) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../043-libblas3_3.12.0-4_amd64.deb ... Unpacking libblas3:amd64 (3.12.0-4) ... Selecting previously unselected package libsnappy1v5:amd64. Preparing to unpack .../044-libsnappy1v5_1.2.1-1+b1_amd64.deb ... Unpacking libsnappy1v5:amd64 (1.2.1-1+b1) ... Selecting previously unselected package libblosc1:amd64. Preparing to unpack .../045-libblosc1_1.21.5+ds-1+b2_amd64.deb ... Unpacking libblosc1:amd64 (1.21.5+ds-1+b2) ... Selecting previously unselected package libbrotli-dev:amd64. Preparing to unpack .../046-libbrotli-dev_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli-dev:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../047-libpixman-1-0_0.44.0-3_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.44.0-3) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../048-libxau6_1%3a1.0.11-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.11-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../049-libxdmcp6_1%3a1.1.5-1_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../050-libxcb1_1.17.0-2+b1_amd64.deb ... Unpacking libxcb1:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../051-libx11-data_2%3a1.8.10-2_all.deb ... Unpacking libx11-data (2:1.8.10-2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../052-libx11-6_2%3a1.8.10-2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.10-2) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../053-libxcb-render0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-render0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../054-libxcb-shm0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../055-libxext6_2%3a1.3.4-1+b2_amd64.deb ... 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Preparing to unpack .../121-libreadline8t64_8.2-5_amd64.deb ... 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 .../122-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 .../123-libsm6_2%3a1.2.4-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.4-1) ... Selecting previously unselected package libtcl8.6:amd64. Preparing to unpack .../124-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ... Selecting previously unselected package libwebp7:amd64. Preparing to unpack .../125-libwebp7_1.4.0-0.1+b1_amd64.deb ... Unpacking libwebp7:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libtiff6:amd64. Preparing to unpack .../126-libtiff6_4.5.1+git230720-5_amd64.deb ... Unpacking libtiff6:amd64 (4.5.1+git230720-5) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../127-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../128-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../129-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 .../130-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 .../131-libtk8.6_8.6.15-1_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.15-1) ... Selecting previously unselected package libxt6t64:amd64. Preparing to unpack .../132-libxt6t64_1%3a1.2.1-1.2+b1_amd64.deb ... Unpacking libxt6t64:amd64 (1:1.2.1-1.2+b1) ... 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Preparing to unpack .../139-r-cran-matrix_1.7-1-1_amd64.deb ... Unpacking r-cran-matrix (1.7-1-1) ... Selecting previously unselected package r-cran-matrixstats. Preparing to unpack .../140-r-cran-matrixstats_1.4.1-1_amd64.deb ... Unpacking r-cran-matrixstats (1.4.1-1) ... Selecting previously unselected package r-bioc-matrixgenerics. Preparing to unpack .../141-r-bioc-matrixgenerics_1.16.0-2_all.deb ... Unpacking r-bioc-matrixgenerics (1.16.0-2) ... Selecting previously unselected package r-bioc-s4vectors. Preparing to unpack .../142-r-bioc-s4vectors_0.42.1+dfsg-2_amd64.deb ... Unpacking r-bioc-s4vectors (0.42.1+dfsg-2) ... Selecting previously unselected package r-bioc-iranges. Preparing to unpack .../143-r-bioc-iranges_2.38.1-1_amd64.deb ... Unpacking r-bioc-iranges (2.38.1-1) ... Selecting previously unselected package r-cran-abind. Preparing to unpack .../144-r-cran-abind_1.4-8-1_all.deb ... Unpacking r-cran-abind (1.4-8-1) ... 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Unpacking r-bioc-delayedarray (0.30.1+dfsg-1) ... Selecting previously unselected package r-bioc-rhdf5lib. Preparing to unpack .../151-r-bioc-rhdf5lib_1.26.0+dfsg-1_amd64.deb ... Unpacking r-bioc-rhdf5lib (1.26.0+dfsg-1) ... Selecting previously unselected package r-bioc-rhdf5filters. Preparing to unpack .../152-r-bioc-rhdf5filters_1.16.0+dfsg-1_amd64.deb ... Unpacking r-bioc-rhdf5filters (1.16.0+dfsg-1) ... Selecting previously unselected package r-bioc-rhdf5. Preparing to unpack .../153-r-bioc-rhdf5_2.48.0+dfsg-3_amd64.deb ... Unpacking r-bioc-rhdf5 (2.48.0+dfsg-3) ... Selecting previously unselected package r-bioc-hdf5array. Preparing to unpack .../154-r-bioc-hdf5array_1.32.1-1_amd64.deb ... Unpacking r-bioc-hdf5array (1.32.1-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up libgraphite2-3:amd64 (1.3.14-2+b1) ... Setting up libgnutls-openssl27t64:amd64 (3.8.8-2) ... 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 libzstd-dev:amd64 (1.5.6+dfsg-1+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libgdbm6t64:amd64 (1.24-2) ... Setting up hdf5-helpers (1.10.10+repack-5+b1) ... Setting up libdatrie1:amd64 (0.2.13-3+b1) ... Setting up libgdbm-compat4t64:amd64 (1.24-2) ... 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 libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... 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 libaec0:amd64 (1.1.3-1+b1) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libsnappy1v5:amd64 (1.2.1-1+b1) ... 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 libunbound8:amd64 (1.22.0-1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-3) ... Setting up rpcsvc-proto (1.4.3-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libgnutls-dane0t64:amd64 (3.8.8-2) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libfribidi0:amd64 (1.0.16-1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:amd64 (3.3.2-2) ... 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 pkgconf-bin (1.8.1-4) ... Setting up libncursesw6:amd64 (6.5-2+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libidn2-dev:amd64 (2.3.7-2+b1) ... 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 perl-modules-5.40 (5.40.0-8) ... Setting up sensible-utils (0.0.24) ... Setting up libcrypt-dev:amd64 (1:4.4.36-5) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up procps (2:4.0.4-6) ... Setting up libblosc1:amd64 (1.21.5+ds-1+b2) ... 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 libc-dev-bin (2.40-4) ... Setting up libtasn1-6-dev:amd64 (4.19.0-3+b3) ... Setting up openssl (3.3.2-2) ... Setting up readline-common (8.2-5) ... 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 libbrotli-dev:amd64 (1.1.0-2+b6) ... Setting up libp11-kit-dev:amd64 (0.25.5-2+b1) ... Setting up libsz2:amd64 (1.1.3-1+b1) ... 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 libgmp-dev:amd64 (2:6.3.0+dfsg-3) ... Setting up nettle-dev:amd64 (3.10-1+b1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libaec-dev:amd64 (1.1.3-1+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 pkgconf:amd64 (1.8.1-4) ... Setting up libperl5.40:amd64 (5.40.0-8) ... 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 perl (5.40.0-8) ... Setting up libglib2.0-0t64:amd64 (2.82.3-2) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libldap-dev:amd64 (2.5.18+dfsg-3+b1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up ucf (3.0045) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up libc6-dev:amd64 (2.40-4) ... Setting up libharfbuzz0b:amd64 (10.1.0-1) ... Setting up libxss1:amd64 (1:1.2.3-1+b2) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up libsm6:amd64 (2:1.2.4-1) ... Setting up libgnutls28-dev:amd64 (3.8.8-2) ... Setting up libpaper1:amd64 (1.1.29+b2) ... Creating config file /etc/papersize with new version Setting up libnghttp2-dev:amd64 (1.64.0-1) ... Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1+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 libjpeg62-turbo-dev:amd64 (1:2.1.5-3+b1) ... Setting up libgssrpc4t64:amd64 (1.21.3-3) ... Setting up libxt6t64:amd64 (1:1.2.1-1.2+b1) ... Setting up comerr-dev:amd64 (2.1-1.47.2~rc1-2) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpangoft2-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-5+b1) ... Setting up libpangocairo-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-3) ... Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-5+b1) ... Setting up libkdb5-10t64:amd64 (1.21.3-3) ... Setting up libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-5+b1) ... Setting up libjpeg-dev:amd64 (1:2.1.5-3+b1) ... Setting up libhdf5-fortran-102t64:amd64 (1.10.10+repack-5+b1) ... Setting up r-base-core (4.4.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.2-1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up r-cran-lattice (0.22-6-1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-3) ... Setting up libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-5+b1) ... Setting up krb5-multidev:amd64 (1.21.3-3) ... Setting up r-bioc-biocgenerics (0.50.0-2) ... Setting up r-cran-matrixstats (1.4.1-1) ... Setting up r-bioc-matrixgenerics (1.16.0-2) ... Setting up r-cran-abind (1.4-8-1) ... Setting up libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-5+b1) ... Setting up r-bioc-zlibbioc (1.50.0+dfsg-2) ... Setting up libkrb5-dev:amd64 (1.21.3-3) ... Setting up libcurl4-openssl-dev:amd64 (8.11.0-1) ... Setting up r-bioc-s4vectors (0.42.1+dfsg-2) ... Setting up libhdf5-dev (1.10.10+repack-5+b1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up r-cran-matrix (1.7-1-1) ... Setting up r-bioc-iranges (2.38.1-1) ... Setting up r-bioc-s4arrays (1.4.1+dfsg-1) ... Setting up r-bioc-rhdf5lib (1.26.0+dfsg-1) ... Setting up r-bioc-rhdf5filters (1.16.0+dfsg-1) ... Setting up r-bioc-xvector (0.44.0-1) ... Setting up r-bioc-sparsearray (1.4.8+dfsg-1) ... Setting up r-bioc-rhdf5 (2.48.0+dfsg-3) ... Setting up r-bioc-delayedarray (0.30.1+dfsg-1) ... Setting up r-bioc-hdf5array (1.32.1-1) ... 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. 0m22.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-y', 'install', 'r-bioc-hdf5array'] 0m22.4s INFO: Running scripts post_install 0m22.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_install_exceptions'] 0m22.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_install_exceptions'] 0m22.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m23.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m23.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpm9wgmtym to sid 0m23.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m23.6s INFO: Running scripts pre_distupgrade 0m23.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m23.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m23.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_exceptions'] 0m23.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_exceptions'] 0m23.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m23.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m23.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'update'] 0m26.7s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.1 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7345 kB] Fetched 17.6 MB in 2s (7831 kB/s) Reading package lists... 0m26.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'update'] 0m26.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-yf', 'dist-upgrade'] 0m30.1s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libhdf5-cpp-103-1t64 libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libhdf5-310 libhdf5-cpp-310 libhdf5-fortran-310 libhdf5-hl-310 libhdf5-hl-cpp-310 libhdf5-hl-fortran-310 The following packages will be upgraded: apt hdf5-helpers libapt-pkg6.0t64 libcurl4-openssl-dev libcurl4t64 libhdf5-dev libpng16-16t64 libsystemd0 libudev1 linux-libc-dev r-bioc-hdf5array r-bioc-rhdf5lib 12 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. Need to get 20.4 MB of archives. After this operation, 7971 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 257-2 [448 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 257-2 [147 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.17 [1113 kB] Get:4 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.17 [1368 kB] Get:5 http://deb.debian.org/debian sid/main amd64 hdf5-helpers amd64 1.14.5+repack-1 [26.3 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libcurl4-openssl-dev amd64 8.11.1-1 [464 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.11.1-1 [351 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libhdf5-310 amd64 1.14.5+repack-1 [1340 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libhdf5-cpp-310 amd64 1.14.5+repack-1 [133 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libhdf5-fortran-310 amd64 1.14.5+repack-1 [112 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libhdf5-hl-310 amd64 1.14.5+repack-1 [69.0 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libhdf5-hl-fortran-310 amd64 1.14.5+repack-1 [43.6 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libhdf5-hl-cpp-310 amd64 1.14.5+repack-1 [24.1 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libhdf5-dev amd64 1.14.5+repack-1 [3165 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.44-3 [280 kB] Get:16 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.12.3-1 [2459 kB] Get:17 http://deb.debian.org/debian sid/main amd64 r-bioc-rhdf5lib amd64 1.26.0+dfsg-1+b1 [104 kB] Get:18 http://deb.debian.org/debian sid/main amd64 r-bioc-hdf5array amd64 1.32.1-1+b1 [8773 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 20.4 MB in 0s (139 MB/s) (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 16761 files and directories currently installed.) Preparing to unpack .../00-hdf5-helpers_1.14.5+repack-1_amd64.deb ... Unpacking hdf5-helpers (1.14.5+repack-1) over (1.10.10+repack-5+b1) ... Preparing to unpack .../01-libcurl4-openssl-dev_8.11.1-1_amd64.deb ... Unpacking libcurl4-openssl-dev:amd64 (8.11.1-1) over (8.11.0-1) ... Preparing to unpack .../02-libcurl4t64_8.11.1-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.11.1-1) over (8.11.0-1) ... Selecting previously unselected package libhdf5-310:amd64. Preparing to unpack .../03-libhdf5-310_1.14.5+repack-1_amd64.deb ... Unpacking libhdf5-310:amd64 (1.14.5+repack-1) ... Selecting previously unselected package libhdf5-cpp-310:amd64. Preparing to unpack .../04-libhdf5-cpp-310_1.14.5+repack-1_amd64.deb ... Unpacking libhdf5-cpp-310:amd64 (1.14.5+repack-1) ... Selecting previously unselected package libhdf5-fortran-310:amd64. Preparing to unpack .../05-libhdf5-fortran-310_1.14.5+repack-1_amd64.deb ... Unpacking libhdf5-fortran-310:amd64 (1.14.5+repack-1) ... Selecting previously unselected package libhdf5-hl-310:amd64. Preparing to unpack .../06-libhdf5-hl-310_1.14.5+repack-1_amd64.deb ... Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-1) ... Selecting previously unselected package libhdf5-hl-fortran-310:amd64. Preparing to unpack .../07-libhdf5-hl-fortran-310_1.14.5+repack-1_amd64.deb ... Unpacking libhdf5-hl-fortran-310:amd64 (1.14.5+repack-1) ... 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Setting up libcurl4-openssl-dev:amd64 (8.11.1-1) ... Setting up libpng16-16t64:amd64 (1.6.44-3) ... Setting up libhdf5-310:amd64 (1.14.5+repack-1) ... Setting up libhdf5-fortran-310:amd64 (1.14.5+repack-1) ... Setting up libhdf5-cpp-310:amd64 (1.14.5+repack-1) ... Setting up libhdf5-hl-310:amd64 (1.14.5+repack-1) ... Setting up libhdf5-hl-cpp-310:amd64 (1.14.5+repack-1) ... Setting up libhdf5-hl-fortran-310:amd64 (1.14.5+repack-1) ... Setting up libhdf5-dev (1.14.5+repack-1) ... Setting up r-bioc-rhdf5lib (1.26.0+dfsg-1+b1) ... Setting up r-bioc-hdf5array (1.32.1-1+b1) ... Processing triggers for libc-bin (2.40-4) ... 0m30.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-yf', 'dist-upgrade'] 0m30.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m31.2s DUMP: 18f2990e3bcee768e07b8708edcaf618 - 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-hdf5array'] 0m31.5s DUMP: Package: r-bioc-hdf5array Source: r-bioc-hdf5array (1.32.1-1) Version: 1.32.1-1+b1 Installed-Size: 9062 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-delayedarray (>= 0.30.1), r-bioc-rhdf5 (>= 2.48.0), r-cran-matrix, r-bioc-rhdf5filters (>= 1.16.0), r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-bioc-iranges (>= 2.38.1), r-bioc-s4arrays (>= 1.4.1), r-bioc-rhdf5lib (>= 1.26.0), libc6 (>= 2.14), libhdf5-310 (>= 1.14.4.3), libhdf5-hl-310 Suggests: r-bioc-biocparallel (>= 1.38.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-experimenthub (>= 2.12.0), r-bioc-genomicfeatures (>= 1.56.0), r-cran-runit, r-bioc-singlecellexperiment (>= 1.26.0), r-bioc-delayedmatrixstats (>= 1.26.0), r-bioc-genefilter (>= 1.86.0) Description-en: HDF5 backend for DelayedArray objects Implements the HDF5Array and TENxMatrix classes, 2 convenient and memory-efficient array-like containers for on-disk representation of HDF5 datasets. HDF5Array is for datasets that use the conventional (i.e. dense) HDF5 representation. TENxMatrix is for datasets that use the HDF5-based sparse matrix representation from 10x Genomics (e.g. the 1.3 Million Brain Cell Dataset). Both containers being DelayedArray extensions, they support all operations supported by DelayedArray objects. These operations can be either delayed or block-processed. Description-md5: 75935fc5e97c3a902de41900a4e583c7 Homepage: https://bioconductor.org/packages/HDF5Array/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-hdf5array/r-bioc-hdf5array_1.32.1-1+b1_amd64.deb Size: 8773264 MD5sum: 672d46398b79227f4bc1215f925a5f89 SHA256: 86a59fc0f509c9b715b5c9f66c9296fa35269e23a8ab9cfd2167b3c658a2c81c 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-hdf5array'] 0m31.5s INFO: apt-cache knows about the following packages: r-bioc-hdf5array 0m31.5s INFO: Running scripts pre_install 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_database-server'] 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_database-server'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_exceptions'] 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_exceptions'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_extras'] 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_extras'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture'] 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy'] 0m31.6s 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: 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy'] 0m31.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy', 'r-bioc-hdf5array'] 0m31.7s DUMP: r-bioc-hdf5array: Installed: 1.32.1-1+b1 Candidate: 1.32.1-1+b1 Version table: *** 1.32.1-1+b1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m31.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy', 'r-bioc-hdf5array'] 0m31.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-y', 'install', 'r-bioc-hdf5array'] 0m32.3s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-hdf5array is already the newest version (1.32.1-1+b1). The following packages were automatically installed and are no longer required: libhdf5-cpp-103-1t64 libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m32.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-y', 'install', 'r-bioc-hdf5array'] 0m32.3s INFO: Running scripts post_install 0m32.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_install_exceptions'] 0m32.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_install_exceptions'] 0m32.3s INFO: Running scripts post_distupgrade 0m32.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m32.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m32.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_exceptions'] 0m32.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_exceptions'] 0m32.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m33.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m33.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m33.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m33.9s INFO: Running scripts pre_install 0m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_database-server'] 0m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_database-server'] 0m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_exceptions'] 0m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_exceptions'] 0m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_extras'] 0m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_extras'] 0m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m34.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy'] 0m34.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy'] 0m34.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy', 'r-bioc-hdf5array'] 0m34.0s DUMP: r-bioc-hdf5array: Installed: 1.32.1-1+b1 Candidate: 1.32.1-1+b1 Version table: *** 1.32.1-1+b1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-cache', 'policy', 'r-bioc-hdf5array'] 0m34.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-y', 'install', 'r-bioc-hdf5array=1.32.1-1+b1'] 0m34.5s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-hdf5array is already the newest version (1.32.1-1+b1). The following packages were automatically installed and are no longer required: libhdf5-cpp-103-1t64 libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m34.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', '-y', 'install', 'r-bioc-hdf5array=1.32.1-1+b1'] 0m34.5s INFO: Running scripts post_install 0m34.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_install_exceptions'] 0m34.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_install_exceptions'] 0m34.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m35.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m36.4s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', '-ac', '--ignore-obsolete'] 0m37.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', '-ac', '--ignore-obsolete'] 0m37.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m38.0s DUMP: 0.15.6 0m38.0s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m38.0s INFO: Running adequate version 0.15.6 now. 0m38.0s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'r-bioc-hdf5array'] 0m38.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'r-bioc-hdf5array'] 0m38.0s INFO: Running scripts pre_remove 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m42.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m42.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m42.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m42.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m42.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m42.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_exceptions'] 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/pre_remove_exceptions'] 0m42.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m42.3s DUMP: install ok installed apt apt 2.9.17 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 comerr-dev:amd64 comerr-dev 2.1-1.47.2~rc1-2 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 1.12-1.2 install ok installed hdf5-helpers hdf5-helpers 1.14.5+repack-1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed krb5-multidev:amd64 krb5-multidev 1.21.3-3 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libaec-dev:amd64 libaec-dev 1.1.3-1+b1 install ok installed libaec0:amd64 libaec0 1.1.3-1+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.17 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 libblosc1:amd64 libblosc1 1.21.5+ds-1+b2 install ok installed libbrotli-dev:amd64 libbrotli-dev 1.1.0-2+b6 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 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 libcurl4-openssl-dev:amd64 libcurl4-openssl-dev 8.11.1-1 install ok installed libcurl4t64:amd64 libcurl4t64 8.11.1-1 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 libevent-2.1-7t64:amd64 libevent-2.1-7t64 2.1.12-stable-10+b1 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 1.0.16-1 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 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 2.82.3-2 install ok installed libgmp-dev:amd64 libgmp-dev 2:6.3.0+dfsg-3 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgmpxx4ldbl:amd64 libgmpxx4ldbl 2:6.3.0+dfsg-3 install ok installed libgnutls-dane0t64:amd64 libgnutls-dane0t64 3.8.8-2 install ok installed libgnutls-openssl27t64:amd64 libgnutls-openssl27t64 3.8.8-2 install ok installed libgnutls28-dev:amd64 libgnutls28-dev 3.8.8-2 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 libgssrpc4t64:amd64 libgssrpc4t64 1.21.3-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 10.1.0-1 install ok installed libhdf5-103-1t64:amd64 libhdf5-103-1t64 1.10.10+repack-5+b1 install ok installed libhdf5-310:amd64 libhdf5-310 1.14.5+repack-1 install ok installed libhdf5-cpp-103-1t64:amd64 libhdf5-cpp-103-1t64 1.10.10+repack-5+b1 install ok installed libhdf5-cpp-310:amd64 libhdf5-cpp-310 1.14.5+repack-1 install ok installed libhdf5-dev libhdf5-dev 1.14.5+repack-1 install ok installed libhdf5-fortran-102t64:amd64 libhdf5-fortran-102t64 1.10.10+repack-5+b1 install ok installed libhdf5-fortran-310:amd64 libhdf5-fortran-310 1.14.5+repack-1 install ok installed libhdf5-hl-100t64:amd64 libhdf5-hl-100t64 1.10.10+repack-5+b1 install ok installed libhdf5-hl-310:amd64 libhdf5-hl-310 1.14.5+repack-1 install ok installed libhdf5-hl-cpp-100t64:amd64 libhdf5-hl-cpp-100t64 1.10.10+repack-5+b1 install ok installed libhdf5-hl-cpp-310:amd64 libhdf5-hl-cpp-310 1.14.5+repack-1 install ok installed libhdf5-hl-fortran-100t64:amd64 libhdf5-hl-fortran-100t64 1.10.10+repack-5+b1 install ok installed libhdf5-hl-fortran-310:amd64 libhdf5-hl-fortran-310 1.14.5+repack-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 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 libidn2-dev:amd64 libidn2-dev 2.3.7-2+b1 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b2 install ok installed libjpeg-dev:amd64 libjpeg-dev 1:2.1.5-3+b1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3+b1 install ok installed libjpeg62-turbo-dev:amd64 libjpeg62-turbo-dev 1:2.1.5-3+b1 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkadm5clnt-mit12:amd64 libkadm5clnt-mit12 1.21.3-3 install ok installed libkadm5srv-mit12:amd64 libkadm5srv-mit12 1.21.3-3 install ok installed libkdb5-10t64:amd64 libkdb5-10t64 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 libkrb5-dev:amd64 libkrb5-dev 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 libldap-dev:amd64 libldap-dev 2.5.18+dfsg-3+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-5 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 libnghttp2-dev:amd64 libnghttp2-dev 1.64.0-1 install ok installed libp11-kit-dev:amd64 libp11-kit-dev 0.25.5-2+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 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 10.44-5 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 libpkgconf3:amd64 libpkgconf3 1.8.1-4 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.44-3 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-6 install ok installed libpsl-dev:amd64 libpsl-dev 0.21.2-1.1+b1 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1+b1 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-5 install ok installed librtmp-dev:amd64 librtmp-dev 2.4+20151223.gitfa8646d.1-2+b5 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 libsnappy1v5:amd64 libsnappy1v5 1.2.1-1+b1 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssh2-1-dev:amd64 libssh2-1-dev 1.11.1-1 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-1 install ok installed libssl-dev:amd64 libssl-dev 3.3.2-2 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 257-2 install ok installed libsz2:amd64 libsz2 1.1.3-1+b1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtasn1-6-dev:amd64 libtasn1-6-dev 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 libudev1:amd64 libudev1 257-2 install ok installed libunbound8:amd64 libunbound8 1.22.0-1 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 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 libzstd-dev:amd64 libzstd-dev 1.5.6+dfsg-1+b1 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 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 nettle-dev:amd64 nettle-dev 3.10-1+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 pkgconf:amd64 pkgconf 1.8.1-4 install ok installed pkgconf-bin pkgconf-bin 1.8.1-4 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-biocgenerics r-bioc-biocgenerics 0.50.0-2 install ok installed r-bioc-delayedarray r-bioc-delayedarray 0.30.1+dfsg-1 install ok installed r-bioc-hdf5array r-bioc-hdf5array 1.32.1-1+b1 install ok installed r-bioc-iranges r-bioc-iranges 2.38.1-1 install ok installed r-bioc-matrixgenerics r-bioc-matrixgenerics 1.16.0-2 install ok installed r-bioc-rhdf5 r-bioc-rhdf5 2.48.0+dfsg-3 install ok installed r-bioc-rhdf5filters r-bioc-rhdf5filters 1.16.0+dfsg-1 install ok installed r-bioc-rhdf5lib r-bioc-rhdf5lib 1.26.0+dfsg-1+b1 install ok installed r-bioc-s4arrays r-bioc-s4arrays 1.4.1+dfsg-1 install ok installed r-bioc-s4vectors r-bioc-s4vectors 0.42.1+dfsg-2 install ok installed r-bioc-sparsearray r-bioc-sparsearray 1.4.8+dfsg-1 install ok installed r-bioc-xvector r-bioc-xvector 0.44.0-1 install ok installed r-bioc-zlibbioc r-bioc-zlibbioc 1.50.0+dfsg-2 install ok installed r-cran-abind r-cran-abind 1.4-8-1 install ok installed r-cran-crayon r-cran-crayon 1.5.2-1 install ok installed r-cran-lattice r-cran-lattice 0.22-6-1 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 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 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.3.dfsg+really1.3.1-1+b1 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m42.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'remove', 'ca-certificates', 'comerr-dev:amd64', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'krb5-multidev:amd64', 'libaec-dev:amd64', 'libaec0:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgssrpc4t64:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-310:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-cpp-310:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-fortran-310:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-310:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-cpp-310:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhdf5-hl-fortran-310:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkadm5clnt-mit12:amd64', 'libkadm5srv-mit12:amd64', 'libkdb5-10t64:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5-dev:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libldap-dev:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libunbound8:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libzstd-dev:amd64', 'linux-libc-dev', 'nettle-dev:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'pkgconf:amd64', 'pkgconf-bin', 'procps', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-delayedarray', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-crayon', 'r-cran-lattice', 'r-cran-matrix', 'r-cran-matrixstats', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-hdf5array'] 0m44.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates comerr-dev fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono hdf5-helpers krb5-multidev libaec-dev libaec0 libatomic1 libblas3 libblosc1 libbrotli-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4-openssl-dev libcurl4t64 libdatrie1 libdeflate0 libevent-2.1-7t64 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libgssapi-krb5-2 libgssrpc4t64 libharfbuzz0b libhdf5-103-1t64 libhdf5-310 libhdf5-cpp-103-1t64 libhdf5-cpp-310 libhdf5-dev libhdf5-fortran-102t64 libhdf5-fortran-310 libhdf5-hl-100t64 libhdf5-hl-310 libhdf5-hl-cpp-100t64 libhdf5-hl-cpp-310 libhdf5-hl-fortran-100t64 libhdf5-hl-fortran-310 libice6 libicu72 libidn2-dev libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64 libkeyutils1 libkrb5-3 libkrb5-dev libkrb5support0 liblapack3 libldap-2.5-0 libldap-dev liblerc4 libncursesw6 libnghttp2-14 libnghttp2-dev libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpkgconf3 libpng16-16t64 libproc2-0 libpsl-dev libpsl5t64 libreadline8t64 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev libssh2-1t64 libssl-dev libsz2 libtasn1-6-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libunbound8 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 libzstd-dev linux-libc-dev nettle-dev openssl perl perl-modules-5.40 pkgconf pkgconf-bin procps r-base-core r-bioc-biocgenerics r-bioc-delayedarray r-bioc-hdf5array r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhdf5 r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-crayon r-cran-lattice r-cran-matrix r-cran-matrixstats readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 0 newly installed, 161 to remove and 0 not upgraded. After this operation, 326 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 ... 16832 files and directories currently installed.) Removing r-bioc-hdf5array (1.32.1-1+b1) ... Removing r-bioc-delayedarray (0.30.1+dfsg-1) ... Removing r-bioc-sparsearray (1.4.8+dfsg-1) ... Removing r-bioc-s4arrays (1.4.1+dfsg-1) ... Removing r-cran-matrix (1.7-1-1) ... Removing r-cran-abind (1.4-8-1) ... Removing r-cran-crayon (1.5.2-1) ... Removing r-bioc-matrixgenerics (1.16.0-2) ... Removing r-cran-matrixstats (1.4.1-1) ... Removing r-bioc-rhdf5 (2.48.0+dfsg-3) ... Removing r-bioc-rhdf5filters (1.16.0+dfsg-1) ... Removing r-bioc-rhdf5lib (1.26.0+dfsg-1+b1) ... Removing libhdf5-dev (1.14.5+repack-1) ... Removing libcurl4-openssl-dev:amd64 (8.11.1-1) ... Removing libkrb5-dev:amd64 (1.21.3-3) ... Removing krb5-multidev:amd64 (1.21.3-3) ... Removing comerr-dev:amd64 (2.1-1.47.2~rc1-2) ... Removing hdf5-helpers (1.14.5+repack-1) ... Removing libaec-dev:amd64 (1.1.3-1+b1) ... Removing libhdf5-hl-fortran-310:amd64 (1.14.5+repack-1) ... Removing libhdf5-hl-cpp-310:amd64 (1.14.5+repack-1) ... Removing libhdf5-hl-310:amd64 (1.14.5+repack-1) ... Removing libhdf5-fortran-310:amd64 (1.14.5+repack-1) ... Removing libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-5+b1) ... Removing libblosc1:amd64 (1.21.5+ds-1+b2) ... Removing libbrotli-dev:amd64 (1.1.0-2+b6) ... Removing librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Removing r-bioc-xvector (0.44.0-1) ... Removing r-bioc-zlibbioc (1.50.0+dfsg-2) ... Removing libjpeg-dev:amd64 (1:2.1.5-3+b1) ... Removing libjpeg62-turbo-dev:amd64 (1:2.1.5-3+b1) ... Removing libgnutls28-dev:amd64 (3.8.8-2) ... Removing libgnutls-dane0t64:amd64 (3.8.8-2) ... Removing libunbound8:amd64 (1.22.0-1) ... Removing libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Removing libhdf5-fortran-102t64:amd64 (1.10.10+repack-5+b1) ... Removing nettle-dev:amd64 (3.10-1+b1) ... Removing libgmp-dev:amd64 (2:6.3.0+dfsg-3) ... Removing libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-3) ... Removing libgnutls-openssl27t64:amd64 (3.8.8-2) ... Removing libkadm5srv-mit12:amd64 (1.21.3-3) ... Removing libkdb5-10t64:amd64 (1.21.3-3) ... Removing libkadm5clnt-mit12:amd64 (1.21.3-3) ... Removing libgssrpc4t64:amd64 (1.21.3-3) ... Removing libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-5+b1) ... Removing libhdf5-cpp-310:amd64 (1.14.5+repack-1) ... Removing libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-5+b1) ... Removing libidn2-dev:amd64 (2.3.7-2+b1) ... Removing libldap-dev:amd64 (2.5.18+dfsg-3+b1) ... Removing libnghttp2-dev:amd64 (1.64.0-1) ... Removing libp11-kit-dev:amd64 (0.25.5-2+b1) ... Removing pkgconf:amd64 (1.8.1-4) ... Removing pkgconf-bin (1.8.1-4) ... Removing libpkgconf3:amd64 (1.8.1-4) ... Removing libpsl-dev:amd64 (0.21.2-1.1+b1) ... Removing libsnappy1v5:amd64 (1.2.1-1+b1) ... Removing libssh2-1-dev:amd64 (1.11.1-1) ... Removing libssl-dev:amd64 (3.3.2-2) ... Removing libtasn1-6-dev:amd64 (4.19.0-3+b3) ... Removing libzstd-dev:amd64 (1.5.6+dfsg-1+b1) ... Removing r-bioc-iranges (2.38.1-1) ... Removing r-bioc-s4vectors (0.42.1+dfsg-2) ... Removing r-bioc-biocgenerics (0.50.0-2) ... Removing r-cran-lattice (0.22-6-1) ... 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 libhdf5-310:amd64 (1.14.5+repack-1) ... Removing libhdf5-hl-100t64:amd64 (1.10.10+repack-5+b1) ... Removing libhdf5-103-1t64:amd64 (1.10.10+repack-5+b1) ... Removing libsz2:amd64 (1.1.3-1+b1) ... Removing libaec0:amd64 (1.1.3-1+b1) ... Removing libharfbuzz0b:amd64 (10.1.0-1) ... Removing libglib2.0-0t64:amd64 (2.82.3-2) ... Removing libatomic1:amd64 (14.2.0-8) ... Removing liblapack3:amd64 (3.12.0-4) ... Removing libblas3:amd64 (3.12.0-4) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing libcurl4t64:amd64 (8.11.1-1) ... Removing libbrotli1:amd64 (1.1.0-2+b6) ... Removing zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Removing libc6-dev:amd64 (2.40-4) ... Removing libc-dev-bin (2.40-4) ... Removing libcrypt-dev:amd64 (1:4.4.36-5) ... 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 (1.0.16-1) ... 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 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 (1.6.44-3) ... 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 linux-libc-dev (6.12.3-1) ... Removing openssl (3.3.2-2) ... Removing perl-modules-5.40 (5.40.0-8) ... Removing readline-common (8.2-5) ... Removing rpcsvc-proto (1.4.3-1) ... 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 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) ... 0m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'remove', 'ca-certificates', 'comerr-dev:amd64', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'krb5-multidev:amd64', 'libaec-dev:amd64', 'libaec0:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgssrpc4t64:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-310:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-cpp-310:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-fortran-310:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-310:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-cpp-310:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhdf5-hl-fortran-310:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkadm5clnt-mit12:amd64', 'libkadm5srv-mit12:amd64', 'libkdb5-10t64:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5-dev:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libldap-dev:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libunbound8:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libzstd-dev:amd64', 'linux-libc-dev', 'nettle-dev:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'pkgconf:amd64', 'pkgconf-bin', 'procps', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-delayedarray', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-crayon', 'r-cran-lattice', 'r-cran-matrix', 'r-cran-matrixstats', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-hdf5array'] 0m44.4s INFO: Running scripts post_remove 0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_remove_exceptions'] 0m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_remove_exceptions'] 0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--purge', 'ca-certificates', 'comerr-dev:amd64', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'krb5-multidev:amd64', 'libaec-dev:amd64', 'libaec0:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgssrpc4t64:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-310:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-cpp-310:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-fortran-310:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-310:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-cpp-310:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhdf5-hl-fortran-310:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkadm5clnt-mit12:amd64', 'libkadm5srv-mit12:amd64', 'libkdb5-10t64:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5-dev:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libldap-dev:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libunbound8:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libzstd-dev:amd64', 'linux-libc-dev', 'nettle-dev:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'pkgconf:amd64', 'pkgconf-bin', 'procps', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-delayedarray', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-crayon', 'r-cran-lattice', 'r-cran-matrix', 'r-cran-matrixstats', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 0m44.8s DUMP: (Reading database ... 5189 files and directories currently installed.) Purging configuration files for ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for comerr-dev:amd64 (2.1-1.47.2~rc1-2) ... 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 hdf5-helpers which isn't installed dpkg: warning: ignoring request to remove krb5-multidev which isn't installed dpkg: warning: ignoring request to remove libaec-dev which isn't installed dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libblosc1 which isn't installed dpkg: warning: ignoring request to remove libbrotli-dev which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed Purging configuration files for libcrypt-dev:amd64 (1:4.4.36-5) ... dpkg: warning: ignoring request to remove libcurl4-openssl-dev which isn't installed dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libevent-2.1-7t64 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove 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 (2.82.3-2) ... dpkg: warning: ignoring request to remove libgmp-dev which isn't installed dpkg: warning: ignoring request to remove libgmpxx4ldbl which isn't installed dpkg: warning: ignoring request to remove libgnutls-dane0t64 which isn't installed dpkg: warning: ignoring request to remove libgnutls-openssl27t64 which isn't installed dpkg: warning: ignoring request to remove libgnutls28-dev which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... dpkg: warning: ignoring request to remove libgssrpc4t64 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhdf5-103-1t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-310 which isn't installed dpkg: warning: ignoring request to remove libhdf5-cpp-103-1t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-cpp-310 which isn't installed dpkg: warning: ignoring request to remove libhdf5-dev which isn't installed dpkg: warning: ignoring request to remove libhdf5-fortran-102t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-fortran-310 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-100t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-310 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-cpp-100t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-cpp-310 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-fortran-100t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-fortran-310 which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libidn2-dev which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg-dev which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo-dev which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkadm5clnt-mit12 which isn't installed dpkg: warning: ignoring request to remove libkadm5srv-mit12 which isn't installed dpkg: warning: ignoring request to remove libkdb5-10t64 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 libkrb5-dev 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 libldap-dev which isn't installed dpkg: warning: ignoring request to remove liblerc4 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 libnghttp2-dev which isn't installed dpkg: warning: ignoring request to remove libp11-kit-dev which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpaper-utils which isn't installed Purging configuration files for libpaper1:amd64 (1.1.29+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 libpkgconf3 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 libpsl-dev which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-5) ... dpkg: warning: ignoring request to remove librtmp-dev which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsm6 which isn't installed dpkg: warning: ignoring request to remove libsnappy1v5 which isn't installed dpkg: warning: ignoring request to remove libssh2-1-dev which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libssl-dev which isn't installed dpkg: warning: ignoring request to remove libsz2 which isn't installed dpkg: warning: ignoring request to remove libtasn1-6-dev which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.3) ... 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 libunbound8 which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libxt6t64 which isn't installed dpkg: warning: ignoring request to remove libzstd-dev which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove nettle-dev 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 pkgconf:amd64 (1.8.1-4) ... dpkg: warning: ignoring request to remove pkgconf-bin 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-biocgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-delayedarray which isn't installed dpkg: warning: ignoring request to remove r-bioc-iranges which isn't installed dpkg: warning: ignoring request to remove r-bioc-matrixgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5 which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5filters which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhdf5lib which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4arrays which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4vectors which isn't installed dpkg: warning: ignoring request to remove r-bioc-sparsearray which isn't installed dpkg: warning: ignoring request to remove r-bioc-xvector which isn't installed dpkg: warning: ignoring request to remove r-bioc-zlibbioc which isn't installed dpkg: warning: ignoring request to remove r-cran-abind which isn't installed dpkg: warning: ignoring request to remove r-cran-crayon 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-matrix which isn't installed dpkg: warning: ignoring request to remove r-cran-matrixstats 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 dpkg: warning: ignoring request to remove zlib1g-dev which isn't installed 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--purge', 'ca-certificates', 'comerr-dev:amd64', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'hdf5-helpers', 'krb5-multidev:amd64', 'libaec-dev:amd64', 'libaec0:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libblosc1:amd64', 'libbrotli-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4-openssl-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libevent-2.1-7t64:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgmp-dev:amd64', 'libgmpxx4ldbl:amd64', 'libgnutls-dane0t64:amd64', 'libgnutls-openssl27t64:amd64', 'libgnutls28-dev:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgssrpc4t64:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-310:amd64', 'libhdf5-cpp-103-1t64:amd64', 'libhdf5-cpp-310:amd64', 'libhdf5-dev', 'libhdf5-fortran-102t64:amd64', 'libhdf5-fortran-310:amd64', 'libhdf5-hl-100t64:amd64', 'libhdf5-hl-310:amd64', 'libhdf5-hl-cpp-100t64:amd64', 'libhdf5-hl-cpp-310:amd64', 'libhdf5-hl-fortran-100t64:amd64', 'libhdf5-hl-fortran-310:amd64', 'libice6:amd64', 'libicu72:amd64', 'libidn2-dev:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libk5crypto3:amd64', 'libkadm5clnt-mit12:amd64', 'libkadm5srv-mit12:amd64', 'libkdb5-10t64:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5-dev:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libldap-dev:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp2-dev:amd64', 'libp11-kit-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpkgconf3:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl-dev:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp-dev:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsnappy1v5:amd64', 'libssh2-1-dev:amd64', 'libssh2-1t64:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtasn1-6-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libunbound8:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libzstd-dev:amd64', 'linux-libc-dev', 'nettle-dev:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'pkgconf:amd64', 'pkgconf-bin', 'procps', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-delayedarray', 'r-bioc-iranges', 'r-bioc-matrixgenerics', 'r-bioc-rhdf5', 'r-bioc-rhdf5filters', 'r-bioc-rhdf5lib', 'r-bioc-s4arrays', 'r-bioc-s4vectors', 'r-bioc-sparsearray', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-abind', 'r-cran-crayon', 'r-cran-lattice', 'r-cran-matrix', 'r-cran-matrixstats', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 0m44.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--purge', 'r-bioc-hdf5array'] 0m44.8s DUMP: dpkg: warning: ignoring request to remove r-bioc-hdf5array which isn't installed 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--purge', 'r-bioc-hdf5array'] 0m44.8s INFO: Running scripts post_purge 0m44.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_purge_exceptions'] 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_purge_exceptions'] 0m44.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--purge', '--pending'] 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--purge', '--pending'] 0m44.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--remove', '--pending'] 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg', '--remove', '--pending'] 0m44.8s INFO: Running scripts post_test 0m44.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_test_exceptions'] 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'tmp/scripts/post_test_exceptions'] 0m44.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m45.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m45.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg-divert', '--list'] 0m45.2s 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 0m45.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'dpkg-divert', '--list'] 0m45.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'clean'] 0m45.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym', 'apt-get', 'clean'] 0m45.2s DEBUG: Recording chroot state 0m45.7s 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 0m46.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/shm'] 0m46.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/shm'] 0m46.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/console'] 0m46.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/console'] 0m46.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/ptmx'] 0m46.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/ptmx'] 0m46.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/pts'] 0m46.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/dev/pts'] 0m46.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/proc'] 0m46.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym/proc'] 0m46.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m46.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpm9wgmtym'] 0m46.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpm9wgmtym 0m46.3s INFO: PASS: Upgrading between Debian distributions. 0m46.3s INFO: PASS: All tests. 0m46.3s INFO: piuparts run ends. ret=0 End: 2024-12-13 15:11:51 GMT