Start: 2024-12-17 22:47:28 GMT [sid] Package: r-bioc-scuttle Version: 1.14.0+dfsg-1 Installed-Size: 803 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-singlecellexperiment (>= 1.26.0), r-cran-matrix, r-cran-rcpp, r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-bioc-biocparallel (>= 1.38.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-delayedarray (>= 0.30.1), r-bioc-delayedmatrixstats (>= 1.26.0), r-bioc-beachmat (>= 2.20.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 14) Suggests: r-bioc-biocstyle (>= 2.32.1), r-cran-knitr, r-bioc-scrnaseq (>= 2.18.0), r-cran-rmarkdown, r-cran-testthat, r-bioc-scran (>= 1.32.0) Description: BioConductor single-cell RNA-Seq analysis utilities Homepage: https://bioconductor.org/packages/scuttle/ Description-md5: 2ea3422df955578f1055a418ce6b610b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-scuttle/r-bioc-scuttle_1.14.0+dfsg-1_amd64.deb Size: 444740 MD5sum: 77fc8ca38bcb16990a92c890d0bacd3f SHA256: 077ddc52c59cb7a0f0eb7296189775b8d3aafd190e02576e57bd15a09cbbb8f9 [experimental] Package: r-bioc-scuttle Version: 1.16.0+dfsg-1 Installed-Size: 809 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.20, r-bioc-singlecellexperiment, r-cran-matrix, r-cran-rcpp, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-biocparallel, r-bioc-genomicranges, r-bioc-summarizedexperiment, r-bioc-s4arrays, r-bioc-matrixgenerics, r-bioc-sparsearray, r-bioc-delayedarray, r-bioc-beachmat, libc6 (>= 2.14), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 14) Suggests: r-bioc-biocstyle, r-cran-knitr, r-bioc-scrnaseq, r-cran-rmarkdown, r-cran-testthat, r-bioc-sparsematrixstats, r-bioc-delayedmatrixstats, r-bioc-scran Description: BioConductor single-cell RNA-Seq analysis utilities Homepage: https://bioconductor.org/packages/scuttle/ Description-md5: 2ea3422df955578f1055a418ce6b610b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-scuttle/r-bioc-scuttle_1.16.0+dfsg-1_amd64.deb Size: 449932 MD5sum: c534edcbf8987f35ceb0025392c710c9 SHA256: 635e8fa4aa0152a4d2772d83d412600aaeb9f832b7c7631501b4cb647f793003 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/sid-merged-usr_amd64.tar.gz -d sid -d experimental -B /srv/piuparts.debian.org/slave/refchroot/sid2experimental/reference-chroot-metadata.dat --apt r-bioc-scuttle=1.16.0+dfsg-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid -d experimental -B /srv/piuparts.debian.org/slave/refchroot/sid2experimental/reference-chroot-metadata.dat --apt r-bioc-scuttle=1.16.0+dfsg-1 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/tmp21lii13w 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp21lii13w 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp21lii13w', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp21lii13w', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp21lii13w/proc'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp21lii13w/proc'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/7', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/7', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp21lii13w/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', 'update'] 0m4.8s 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 [7352 kB] Fetched 17.6 MB in 3s (5796 kB/s) Reading package lists... 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', 'update'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-yf', 'dist-upgrade'] 0m6.1s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: gcc-14-base libgcc-s1 libstdc++6 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 834 kB of archives. After this operation, 1024 B of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-11 [48.0 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-11 [713 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-11 [72.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 834 kB in 0s (13.3 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5131 files and directories currently installed.) Preparing to unpack .../gcc-14-base_14.2.0-11_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-11) over (14.2.0-8) ... Setting up gcc-14-base:amd64 (14.2.0-11) ... (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 ... 5131 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-11_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-11) over (14.2.0-8) ... Setting up libstdc++6:amd64 (14.2.0-11) ... (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 ... 5131 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14.2.0-11_amd64.deb ... Unpacking libgcc-s1:amd64 (14.2.0-11) over (14.2.0-8) ... Setting up libgcc-s1:amd64 (14.2.0-11) ... Processing triggers for libc-bin (2.40-4) ... 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-yf', 'dist-upgrade'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.6s DUMP: e9a31564090703924d419b4a65a5864e - 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.6s INFO: Running scripts post_setup 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_dummy_users'] 0m8.6s 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 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_dummy_users'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_forbid_home'] 0m8.6s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_forbid_home'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.6s 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' 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_minimize'] 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_minimize'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_zz_backports'] 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_setup_zz_backports'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.6s 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 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 14.2.0-11 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 2.9.17 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 14.2.0-11 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 14.2.0-11 install ok installed libsystemd0:amd64 libsystemd0 257-2 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 257-2 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 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.6s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/sid2experimental/reference-chroot-metadata.dat 0m8.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp21lii13w'] 0m9.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp21lii13w'] 0m9.0s INFO: Running scripts is_testable 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/is_testable_uninstallable'] 0m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/is_testable_uninstallable'] 0m9.0s INFO: Running scripts pre_test 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_test_exceptions'] 0m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_test_exceptions'] 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_test_root_password'] 0m9.0s DUMP: New password: Retype new password: passwd: password updated successfully 0m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_test_root_password'] 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-scuttle'] 0m9.3s DUMP: Package: r-bioc-scuttle Version: 1.14.0+dfsg-1 Installed-Size: 803 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-singlecellexperiment (>= 1.26.0), r-cran-matrix, r-cran-rcpp, r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-bioc-biocparallel (>= 1.38.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-delayedarray (>= 0.30.1), r-bioc-delayedmatrixstats (>= 1.26.0), r-bioc-beachmat (>= 2.20.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 14) Suggests: r-bioc-biocstyle (>= 2.32.1), r-cran-knitr, r-bioc-scrnaseq (>= 2.18.0), r-cran-rmarkdown, r-cran-testthat, r-bioc-scran (>= 1.32.0) Description-en: BioConductor single-cell RNA-Seq analysis utilities Provides basic utility functions for performing single-cell analyses, focusing on simple normalization, quality control and data transformations. Also provides some helper functions to assist development of other packages. Description-md5: 2ea3422df955578f1055a418ce6b610b Homepage: https://bioconductor.org/packages/scuttle/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-scuttle/r-bioc-scuttle_1.14.0+dfsg-1_amd64.deb Size: 444740 MD5sum: 77fc8ca38bcb16990a92c890d0bacd3f SHA256: 077ddc52c59cb7a0f0eb7296189775b8d3aafd190e02576e57bd15a09cbbb8f9 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-scuttle'] 0m9.3s INFO: apt-cache knows about the following packages: r-bioc-scuttle 0m9.3s INFO: Running scripts pre_install 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_database-server'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_database-server'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_exceptions'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_exceptions'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_extras'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_extras'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy'] 0m9.4s 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: 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy', 'r-bioc-scuttle'] 0m9.4s DUMP: r-bioc-scuttle: Installed: (none) Candidate: 1.14.0+dfsg-1 Version table: 1.14.0+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy', 'r-bioc-scuttle'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-y', 'install', 'r-bioc-scuttle'] 0m33.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libasan8 libatomic1 libblas3 libboost-dev libboost1.83-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-14-dev libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhwasan0 libice6 libicu72 libitm1 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libncursesw6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libquadmath0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libstdc++-14-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 linux-libc-dev littler openssl perl perl-modules-5.40 procps r-base-core r-bioc-beachmat r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-s4arrays r-bioc-s4vectors r-bioc-singlecellexperiment r-bioc-sparsearray r-bioc-sparsematrixstats r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-bh r-cran-codetools r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-httr r-cran-jsonlite r-cran-lambda.r r-cran-lattice r-cran-littler r-cran-matrix r-cran-matrixstats r-cran-mime r-cran-openssl r-cran-pkgkitten r-cran-r6 r-cran-rcpp r-cran-snow r-cran-sys readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev Suggested packages: libboost-doc libboost1.83-doc libboost-atomic1.83-dev libboost-chrono1.83-dev libboost-container1.83-dev libboost-context1.83-dev libboost-contract1.83-dev libboost-coroutine1.83-dev libboost-date-time1.83-dev libboost-exception1.83-dev libboost-fiber1.83-dev libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev libboost-numpy1.83-dev libboost-program-options1.83-dev libboost-python1.83-dev libboost-random1.83-dev libboost-regex1.83-dev libboost-serialization1.83-dev libboost-stacktrace1.83-dev libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev libc-devtools glibc-doc manpages-dev gdbm-l10n low-memory-monitor krb5-doc krb5-user libstdc++-14-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-cran-testthat r-bioc-biocstyle r-cran-knitr r-cran-rmarkdown r-cran-rcmdcheck r-bioc-hdf5array r-bioc-all r-cran-runit r-bioc-golubesets r-bioc-limma r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-foreach r-cran-bbmisc r-cran-doparallel r-bioc-variantannotation r-bioc-genomicalignments r-bioc-shortread r-cran-batchtools r-cran-data.table r-bioc-genefilter r-cran-lobstr r-cran-microbenchmark r-cran-profmem r-cran-r.utils r-bioc-genomicfeatures r-bioc-bsgenome r-bioc-rtracklayer r-bioc-txdbmaker r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq r-bioc-edger r-bioc-keggrest r-cran-digest r-bioc-graph r-bioc-scrnaseq r-bioc-scran r-cran-rtsne r-cran-bench r-bioc-rhdf5 r-cran-dbi r-cran-rmariadb r-cran-rstudioapi r-cran-getopt r-cran-inline r-cran-rmpi r-cran-rlecuyer readline-doc Recommended packages: manpages manpages-dev libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules netbase psmisc linux-sysctl-defaults r-recommended r-base-dev r-doc-html r-cran-testthat r-cran-bench r-cran-brio r-cran-callr r-cran-cli r-cran-covr r-cran-decor r-cran-desc r-cran-ggplot2 r-cran-glue r-cran-knitr r-cran-lobstr r-cran-mockery r-cran-progress r-cran-rmarkdown r-cran-scales r-cran-tibble r-cran-vctrs r-cran-withr r-cran-spelling r-cran-later r-cran-httpuv r-cran-webutils r-cran-rstudioapi r-cran-shiny r-cran-testit r-cran-survival r-cran-jpeg r-cran-png r-cran-readr r-cran-xml2 r-cran-r.rsp r-cran-sf r-cran-base64enc r-cran-markdown r-cran-microbenchmark r-cran-r.devices r-cran-digest r-cran-sodium libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libasan8 libatomic1 libblas3 libboost-dev libboost1.83-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-14-dev libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhwasan0 libice6 libicu72 libitm1 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 libncursesw6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libquadmath0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libstdc++-14-dev libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtsan2 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 linux-libc-dev littler openssl perl perl-modules-5.40 procps r-base-core r-bioc-beachmat r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-delayedarray r-bioc-delayedmatrixstats r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-s4arrays r-bioc-s4vectors r-bioc-scuttle r-bioc-singlecellexperiment r-bioc-sparsearray r-bioc-sparsematrixstats r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-bh r-cran-codetools r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-httr r-cran-jsonlite r-cran-lambda.r r-cran-lattice r-cran-littler r-cran-matrix r-cran-matrixstats r-cran-mime r-cran-openssl r-cran-pkgkitten r-cran-r6 r-cran-rcpp r-cran-snow r-cran-sys readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 149 newly installed, 0 to remove and 0 not upgraded. Need to get 144 MB of archives. After this operation, 546 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.5-2+b1 [136 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get:3 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get:4 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-6 [69.4 kB] Get:5 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:6 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get:7 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20240203 [158 kB] Get:8 http://deb.debian.org/debian sid/main amd64 perl-modules-5.40 all 5.40.0-8 [3015 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libperl5.40 amd64 5.40.0-8 [4320 kB] Get:12 http://deb.debian.org/debian sid/main amd64 perl amd64 5.40.0-8 [267 kB] Get:13 http://deb.debian.org/debian sid/main amd64 ucf all 3.0045 [45.2 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.44-3 [280 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:18 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:19 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:20 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get:22 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libasan8 amd64 14.2.0-11 [2728 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-11 [9284 B] Get:25 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.0-4 [152 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-11 [137 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libitm1 amd64 14.2.0-11 [26.0 kB] Get:28 http://deb.debian.org/debian sid/main amd64 liblsan0 amd64 14.2.0-11 [1205 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libtsan2 amd64 14.2.0-11 [2461 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libubsan1 amd64 14.2.0-11 [1075 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libhwasan0 amd64 14.2.0-11 [1489 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14.2.0-11 [146 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libgcc-14-dev amd64 14.2.0-11 [2673 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libc-dev-bin amd64 2.40-4 [52.0 kB] Get:35 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.12.5-1 [2474 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.36-5 [118 kB] Get:37 http://deb.debian.org/debian sid/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libc6-dev amd64 2.40-4 [1954 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libstdc++-14-dev amd64 14.2.0-11 [2373 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libboost1.83-dev amd64 1.83.0-4 [10.6 MB] Get:41 http://deb.debian.org/debian sid/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:42 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get:48 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:49 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1.1+b3 [27.8 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:55 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get:56 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:57 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:58 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:60 http://deb.debian.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get:61 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get:62 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:63 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:65 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.11.1-1 [351 kB] Get:66 http://deb.debian.org/debian sid/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get:67 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get:68 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB] Get:69 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-11 [836 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.82.4-1 [1501 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 10.1.0-1 [478 kB] Get:73 http://deb.debian.org/debian sid/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:74 http://deb.debian.org/debian sid/main amd64 libice6 amd64 2:1.1.1-1 [65.4 kB] Get:75 http://deb.debian.org/debian sid/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:78 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.0-4 [2450 kB] Get:79 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:80 http://deb.debian.org/debian sid/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.55.0+ds-3 [225 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.55.0+ds-3 [54.6 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.55.0+ds-3 [35.4 kB] Get:85 http://deb.debian.org/debian sid/main amd64 libpaper1 amd64 1.1.29+b2 [12.8 kB] Get:86 http://deb.debian.org/debian sid/main amd64 libpaper-utils amd64 1.1.29+b2 [9236 B] Get:87 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-6 [169 kB] Get:88 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get:89 http://deb.debian.org/debian sid/main amd64 libsm6 amd64 2:1.2.4-1 [35.2 kB] Get:90 http://deb.debian.org/debian sid/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1042 kB] Get:91 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get:92 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:93 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:94 http://deb.debian.org/debian sid/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get:95 http://deb.debian.org/debian sid/main amd64 libxft2 amd64 2.3.6-1+b3 [54.6 kB] Get:96 http://deb.debian.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1+b2 [17.0 kB] Get:97 http://deb.debian.org/debian sid/main amd64 libtk8.6 amd64 8.6.15-1 [791 kB] Get:98 http://deb.debian.org/debian sid/main amd64 libxt6t64 amd64 1:1.2.1-1.2+b1 [188 kB] Get:99 http://deb.debian.org/debian sid/main amd64 zip amd64 3.0-14 [233 kB] Get:100 http://deb.debian.org/debian sid/main amd64 unzip amd64 6.0-28 [166 kB] Get:101 http://deb.debian.org/debian sid/main amd64 xdg-utils all 1.2.1-2 [75.8 kB] Get:102 http://deb.debian.org/debian sid/main amd64 r-base-core amd64 4.4.2-1 [28.3 MB] Get:103 http://deb.debian.org/debian sid/main amd64 r-cran-littler amd64 0.3.20-2 [103 kB] Get:104 http://deb.debian.org/debian sid/main amd64 littler all 0.3.20-2 [16.0 kB] Get:105 http://deb.debian.org/debian sid/main amd64 r-bioc-biocgenerics all 0.50.0-2 [607 kB] Get:106 http://deb.debian.org/debian sid/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:107 http://deb.debian.org/debian sid/main amd64 r-cran-matrix amd64 1.7-1-1 [4138 kB] Get:108 http://deb.debian.org/debian sid/main amd64 r-cran-matrixstats amd64 1.4.1-1 [510 kB] Get:109 http://deb.debian.org/debian sid/main amd64 r-bioc-matrixgenerics all 1.16.0-2 [423 kB] Get:110 http://deb.debian.org/debian sid/main amd64 r-bioc-s4vectors amd64 0.42.1+dfsg-2 [1894 kB] Get:111 http://deb.debian.org/debian sid/main amd64 r-bioc-iranges amd64 2.38.1-1 [2305 kB] Get:112 http://deb.debian.org/debian sid/main amd64 r-cran-abind all 1.4-8-1 [68.1 kB] Get:113 http://deb.debian.org/debian sid/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get:114 http://deb.debian.org/debian sid/main amd64 r-bioc-s4arrays amd64 1.4.1+dfsg-1 [524 kB] Get:115 http://deb.debian.org/debian sid/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get:116 http://deb.debian.org/debian sid/main amd64 r-bioc-zlibbioc all 1.50.0+dfsg-2 [9876 B] Get:117 http://deb.debian.org/debian sid/main amd64 r-bioc-xvector amd64 0.44.0-1 [622 kB] Get:118 http://deb.debian.org/debian sid/main amd64 r-bioc-sparsearray amd64 1.4.8+dfsg-1 [1254 kB] Get:119 http://deb.debian.org/debian sid/main amd64 r-bioc-delayedarray amd64 0.30.1+dfsg-1 [1847 kB] Get:120 http://deb.debian.org/debian sid/main amd64 r-cran-pkgkitten all 0.2.4-1 [29.1 kB] Get:121 http://deb.debian.org/debian sid/main amd64 r-cran-rcpp amd64 1.0.13-1-1 [2074 kB] Get:122 http://deb.debian.org/debian sid/main amd64 r-bioc-beachmat amd64 2.20.0+ds-1 [1386 kB] Get:123 http://deb.debian.org/debian sid/main amd64 r-bioc-biobase amd64 2.64.0-4 [2132 kB] Get:124 http://deb.debian.org/debian sid/main amd64 r-cran-formatr all 1.14-2 [152 kB] Get:125 http://deb.debian.org/debian sid/main amd64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get:126 http://deb.debian.org/debian sid/main amd64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get:127 http://deb.debian.org/debian sid/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get:128 http://deb.debian.org/debian sid/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get:129 http://deb.debian.org/debian sid/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:130 http://deb.debian.org/debian sid/main amd64 r-cran-bh all 1.84.0-1 [5912 B] Get:131 http://deb.debian.org/debian sid/main amd64 r-cran-cpp11 all 0.5.0-1 [213 kB] Get:132 http://deb.debian.org/debian sid/main amd64 r-bioc-biocparallel amd64 1.38.0-2 [1325 kB] Get:133 http://deb.debian.org/debian sid/main amd64 r-bioc-sparsematrixstats amd64 1.16.0+dfsg-1 [922 kB] Get:134 http://deb.debian.org/debian sid/main amd64 r-bioc-delayedmatrixstats all 1.26.0+ds-1 [487 kB] Get:135 http://deb.debian.org/debian sid/main amd64 r-cran-curl amd64 5.2.3+dfsg-1 [178 kB] Get:136 http://deb.debian.org/debian sid/main amd64 r-cran-jsonlite amd64 1.8.9+dfsg-1 [445 kB] Get:137 http://deb.debian.org/debian sid/main amd64 r-cran-mime amd64 0.12-2 [35.6 kB] Get:138 http://deb.debian.org/debian sid/main amd64 r-cran-sys amd64 3.4.3-1 [44.4 kB] Get:139 http://deb.debian.org/debian sid/main amd64 r-cran-askpass amd64 1.2.1-1 [24.2 kB] Get:140 http://deb.debian.org/debian sid/main amd64 r-cran-openssl amd64 2.2.0+dfsg-1 [401 kB] Get:141 http://deb.debian.org/debian sid/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get:142 http://deb.debian.org/debian sid/main amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get:143 http://deb.debian.org/debian sid/main amd64 r-bioc-ucsc.utils all 1.0.0+ds-2 [77.0 kB] Get:144 http://deb.debian.org/debian sid/main amd64 r-bioc-genomeinfodbdata all 1.2.12-1 [12.6 MB] Get:145 http://deb.debian.org/debian sid/main amd64 r-bioc-genomeinfodb all 1.40.1+dfsg-1 [3843 kB] Get:146 http://deb.debian.org/debian sid/main amd64 r-bioc-genomicranges amd64 1.56.2+dfsg-1 [1843 kB] Get:147 http://deb.debian.org/debian sid/main amd64 r-bioc-summarizedexperiment all 1.34.0+dfsg-1 [1102 kB] Get:148 http://deb.debian.org/debian sid/main amd64 r-bioc-singlecellexperiment all 1.26.0+ds-1 [831 kB] Get:149 http://deb.debian.org/debian sid/main amd64 r-bioc-scuttle amd64 1.14.0+dfsg-1 [445 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 144 MB in 2s (74.5 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 ... 5135 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_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... 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) ... 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Unpacking libfontconfig1:amd64 (2.15.0-1.1+b1) ... Selecting previously unselected package fontconfig. Preparing to unpack .../021-fontconfig_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig (2.15.0-1.1+b1) ... Selecting previously unselected package libasan8:amd64. Preparing to unpack .../022-libasan8_14.2.0-11_amd64.deb ... Unpacking libasan8:amd64 (14.2.0-11) ... Selecting previously unselected package libatomic1:amd64. Preparing to unpack .../023-libatomic1_14.2.0-11_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-11) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../024-libblas3_3.12.0-4_amd64.deb ... Unpacking libblas3:amd64 (3.12.0-4) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../025-libgomp1_14.2.0-11_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-11) ... Selecting previously unselected package libitm1:amd64. Preparing to unpack .../026-libitm1_14.2.0-11_amd64.deb ... Unpacking libitm1:amd64 (14.2.0-11) ... Selecting previously unselected package liblsan0:amd64. Preparing to unpack .../027-liblsan0_14.2.0-11_amd64.deb ... Unpacking liblsan0:amd64 (14.2.0-11) ... Selecting previously unselected package libtsan2:amd64. Preparing to unpack .../028-libtsan2_14.2.0-11_amd64.deb ... Unpacking libtsan2:amd64 (14.2.0-11) ... Selecting previously unselected package libubsan1:amd64. Preparing to unpack .../029-libubsan1_14.2.0-11_amd64.deb ... Unpacking libubsan1:amd64 (14.2.0-11) ... Selecting previously unselected package libhwasan0:amd64. Preparing to unpack .../030-libhwasan0_14.2.0-11_amd64.deb ... Unpacking libhwasan0:amd64 (14.2.0-11) ... Selecting previously unselected package libquadmath0:amd64. Preparing to unpack .../031-libquadmath0_14.2.0-11_amd64.deb ... Unpacking libquadmath0:amd64 (14.2.0-11) ... Selecting previously unselected package libgcc-14-dev:amd64. Preparing to unpack .../032-libgcc-14-dev_14.2.0-11_amd64.deb ... Unpacking libgcc-14-dev:amd64 (14.2.0-11) ... Selecting previously unselected package libc-dev-bin. Preparing to unpack .../033-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 .../034-linux-libc-dev_6.12.5-1_all.deb ... Unpacking linux-libc-dev (6.12.5-1) ... Selecting previously unselected package libcrypt-dev:amd64. Preparing to unpack .../035-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 .../036-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 .../037-libc6-dev_2.40-4_amd64.deb ... Unpacking libc6-dev:amd64 (2.40-4) ... Selecting previously unselected package libstdc++-14-dev:amd64. Preparing to unpack .../038-libstdc++-14-dev_14.2.0-11_amd64.deb ... Unpacking libstdc++-14-dev:amd64 (14.2.0-11) ... Selecting previously unselected package libboost1.83-dev:amd64. Preparing to unpack .../039-libboost1.83-dev_1.83.0-4_amd64.deb ... Unpacking libboost1.83-dev:amd64 (1.83.0-4) ... Selecting previously unselected package libboost-dev:amd64. Preparing to unpack .../040-libboost-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-dev:amd64 (1.83.0.2+b2) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../041-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 .../042-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 .../043-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 .../044-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 .../045-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 .../046-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 .../047-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 .../048-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 .../049-libxext6_2%3a1.3.4-1+b2_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.4-1+b2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../050-libxrender1_1%3a0.9.10-1.1+b3_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1.1+b3) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../051-libcairo2_1.18.2-2_amd64.deb ... Unpacking libcairo2:amd64 (1.18.2-2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../052-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../053-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../054-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../055-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... 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Setting up libpixman-1-0:amd64 (0.44.0-3) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libgdbm6t64:amd64 (1.24-2) ... 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 (6.12.5-1) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libgomp1:amd64 (14.2.0-11) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up zip (3.0-14) ... Setting up libblas3:amd64 (3.12.0-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up rpcsvc-proto (1.4.3-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libfribidi0:amd64 (1.0.16-1) ... Setting up libquadmath0:amd64 (14.2.0-11) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.44-3) ... Setting up libatomic1:amd64 (14.2.0-11) ... Setting up libtcl8.6:amd64 (8.6.15+dfsg-2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libncursesw6:amd64 (6.5-2+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-11) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up libubsan1:amd64 (14.2.0-11) ... Setting up perl-modules-5.40 (5.40.0-8) ... Setting up sensible-utils (0.0.24) ... Setting up libhwasan0:amd64 (14.2.0-11) ... Setting up libcrypt-dev:amd64 (1:4.4.36-5) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libasan8:amd64 (14.2.0-11) ... Setting up procps (2:4.0.4-6) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up libthai-data (0.1.29-2) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libtsan2:amd64 (14.2.0-11) ... Setting up libc-dev-bin (2.40-4) ... Setting up openssl (3.3.2-2) ... Setting up readline-common (8.2-6) ... Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up liblsan0:amd64 (14.2.0-11) ... Setting up libitm1:amd64 (14.2.0-11) ... 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 libxrender1:amd64 (1:0.9.10-1.1+b3) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up 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 (2.82.4-1) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up ucf (3.0045) ... Setting up libreadline8t64:amd64 (8.2-6) ... 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 libgcc-14-dev:amd64 (14.2.0-11) ... Setting up libstdc++-14-dev:amd64 (14.2.0-11) ... Setting up libsm6:amd64 (2:1.2.4-1) ... Setting up libpaper1:amd64 (1.1.29+b2) ... Creating config file /etc/papersize with new version Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1+b3) ... Setting up libboost1.83-dev:amd64 (1.83.0-4) ... Setting up libcurl4t64:amd64 (8.11.1-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libtk8.6:amd64 (8.6.15-1) ... Setting up libpango-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libpaper-utils (1.1.29+b2) ... Setting up libcairo2:amd64 (1.18.2-2) ... Setting up libxt6t64:amd64 (1:1.2.1-1.2+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libboost-dev:amd64 (1.83.0.2+b2) ... Setting up libpangoft2-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libpangocairo-1.0-0:amd64 (1.55.0+ds-3) ... Setting up r-base-core (4.4.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.2-1) ... Setting up r-cran-futile.options (1.0.1-3) ... Setting up r-cran-lattice (0.22-6-1) ... Setting up r-cran-formatr (1.14-2) ... Setting up r-cran-r6 (2.5.1-1) ... Setting up r-cran-pkgkitten (0.2.4-1) ... Setting up r-bioc-genomeinfodbdata (1.2.12-1) ... Setting up r-cran-littler (0.3.20-2) ... Setting up r-cran-bh (1.84.0-1) ... Setting up r-cran-rcpp (1.0.13-1-1) ... Setting up r-cran-curl (5.2.3+dfsg-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-bioc-biocgenerics (0.50.0-2) ... Setting up r-cran-matrixstats (1.4.1-1) ... Setting up littler (0.3.20-2) ... Setting up r-bioc-matrixgenerics (1.16.0-2) ... Setting up r-cran-sys (3.4.3-1) ... Setting up r-cran-mime (0.12-2) ... Setting up r-cran-abind (1.4-8-1) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up r-bioc-zlibbioc (1.50.0+dfsg-2) ... Setting up r-cran-askpass (1.2.1-1) ... Setting up r-bioc-biobase (2.64.0-4) ... Setting up r-cran-jsonlite (1.8.9+dfsg-1) ... Setting up r-cran-cpp11 (0.5.0-1) ... Setting up r-bioc-s4vectors (0.42.1+dfsg-2) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up r-cran-matrix (1.7-1-1) ... Setting up r-bioc-iranges (2.38.1-1) ... Setting up r-bioc-sparsematrixstats (1.16.0+dfsg-1) ... Setting up r-cran-openssl (2.2.0+dfsg-1) ... Setting up r-bioc-s4arrays (1.4.1+dfsg-1) ... Setting up r-bioc-biocparallel (1.38.0-2) ... Setting up r-cran-httr (1.4.7+dfsg-1) ... Setting up r-bioc-xvector (0.44.0-1) ... Setting up r-bioc-ucsc.utils (1.0.0+ds-2) ... Setting up r-bioc-sparsearray (1.4.8+dfsg-1) ... Setting up r-bioc-genomeinfodb (1.40.1+dfsg-1) ... Setting up r-bioc-delayedarray (0.30.1+dfsg-1) ... Setting up r-bioc-genomicranges (1.56.2+dfsg-1) ... Setting up r-bioc-delayedmatrixstats (1.26.0+ds-1) ... Setting up r-bioc-beachmat (2.20.0+ds-1) ... Setting up r-bioc-summarizedexperiment (1.34.0+dfsg-1) ... Setting up r-bioc-singlecellexperiment (1.26.0+ds-1) ... Setting up r-bioc-scuttle (1.14.0+dfsg-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. 0m33.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-y', 'install', 'r-bioc-scuttle'] 0m33.7s INFO: Running scripts post_install 0m33.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_install_exceptions'] 0m33.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/post_install_exceptions'] 0m33.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp21lii13w'] 0m36.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp21lii13w'] 0m36.1s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp21lii13w to experimental 0m36.1s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main deb http://deb.debian.org/debian/ experimental main 0m36.1s INFO: Running scripts pre_distupgrade 0m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m36.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_exceptions'] 0m36.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_exceptions'] 0m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m36.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m36.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m36.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', 'update'] 0m37.7s DUMP: Hit:1 http://deb.debian.org/debian sid InRelease Get:2 http://deb.debian.org/debian experimental InRelease [101 kB] Get:3 http://deb.debian.org/debian experimental/main amd64 Packages [434 kB] Get:4 http://deb.debian.org/debian experimental/main Translation-en [272 kB] Fetched 807 kB in 0s (2634 kB/s) Reading package lists... 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', 'update'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-yf', 'dist-upgrade'] 0m38.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m38.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-yf', 'dist-upgrade'] 0m38.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.9s DUMP: 7c087db297b287ad816e704830731d3e - 0m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-scuttle'] 0m39.2s DUMP: Package: r-bioc-scuttle Version: 1.14.0+dfsg-1 Installed-Size: 803 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-bioc-singlecellexperiment (>= 1.26.0), r-cran-matrix, r-cran-rcpp, r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-bioc-biocparallel (>= 1.38.0), r-bioc-genomicranges (>= 1.56.1), r-bioc-summarizedexperiment (>= 1.34.0), r-bioc-delayedarray (>= 0.30.1), r-bioc-delayedmatrixstats (>= 1.26.0), r-bioc-beachmat (>= 2.20.0), libc6 (>= 2.14), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 14) Suggests: r-bioc-biocstyle (>= 2.32.1), r-cran-knitr, r-bioc-scrnaseq (>= 2.18.0), r-cran-rmarkdown, r-cran-testthat, r-bioc-scran (>= 1.32.0) Description-en: BioConductor single-cell RNA-Seq analysis utilities Provides basic utility functions for performing single-cell analyses, focusing on simple normalization, quality control and data transformations. Also provides some helper functions to assist development of other packages. Description-md5: 2ea3422df955578f1055a418ce6b610b Homepage: https://bioconductor.org/packages/scuttle/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-scuttle/r-bioc-scuttle_1.14.0+dfsg-1_amd64.deb Size: 444740 MD5sum: 77fc8ca38bcb16990a92c890d0bacd3f SHA256: 077ddc52c59cb7a0f0eb7296189775b8d3aafd190e02576e57bd15a09cbbb8f9 0m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-scuttle'] 0m39.2s INFO: apt-cache knows about the following packages: r-bioc-scuttle 0m39.2s INFO: Running scripts pre_install 0m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_database-server'] 0m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_database-server'] 0m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_exceptions'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_exceptions'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_extras'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_extras'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy'] 0m39.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 1 http://deb.debian.org/debian experimental/main amd64 Packages release o=Debian,a=experimental,n=rc-buggy,l=Debian,c=main,b=amd64 origin deb.debian.org 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: 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy', 'r-bioc-scuttle'] 0m39.4s DUMP: r-bioc-scuttle: Installed: 1.14.0+dfsg-1 Candidate: 1.14.0+dfsg-1 Version table: 1.16.0+dfsg-1 1 1 http://deb.debian.org/debian experimental/main amd64 Packages *** 1.14.0+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m39.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-cache', 'policy', 'r-bioc-scuttle'] 0m39.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-y', '-t', 'experimental', 'install', 'r-bioc-scuttle'] 0m40.1s DUMP: Reading package lists... Building dependency tree... Reading state information... Some packages could not be installed. This may mean that you have requested an impossible situation or if you are using the unstable distribution that some required packages have not yet been created or been moved out of Incoming. The following information may help to resolve the situation: The following packages have unmet dependencies: r-bioc-beachmat : Depends: r-api-bioc-3.19 E: Unable to correct problems, you have held broken packages. 0m40.1s ERROR: Command failed (status=100): ['chroot', '/srv/piuparts.debian.org/tmp/tmp21lii13w', 'apt-get', '-y', '-t', 'experimental', 'install', 'r-bioc-scuttle'] Reading package lists... Building dependency tree... Reading state information... Some packages could not be installed. This may mean that you have requested an impossible situation or if you are using the unstable distribution that some required packages have not yet been created or been moved out of Incoming. The following information may help to resolve the situation: The following packages have unmet dependencies: r-bioc-beachmat : Depends: r-api-bioc-3.19 E: Unable to correct problems, you have held broken packages. 0m42.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/shm'] 0m42.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/shm'] 0m42.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/console'] 0m42.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/console'] 0m42.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/ptmx'] 0m42.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/ptmx'] 0m42.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/pts'] 0m42.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/dev/pts'] 0m42.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/proc'] 0m42.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp21lii13w/proc'] 0m42.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp21lii13w'] 0m42.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp21lii13w'] 0m42.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp21lii13w 0m42.5s ERROR: piuparts run ends. ret=1 End: 2024-12-17 22:48:11 GMT