Start: 2024-02-23 09:45:22 GMT [bullseye] Package: r-bioc-bitseq Version: 1.34.0+dfsg-1 Installed-Size: 5998 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-bioc-rsamtools (>= 1.99.3), r-bioc-s4vectors, r-bioc-iranges, r-bioc-rhtslib (>= 1.15.5), libc6 (>= 2.29), libcurl4 (>= 7.18.0), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 5.2) Suggests: r-bioc-edger, r-bioc-deseq, r-bioc-biocstyle Description: transcript expression inference and analysis for RNA-seq data Homepage: https://bioconductor.org/packages/BitSeq/ Description-md5: 22ff866a439a9bfddee6c325ea799b9b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bitseq/r-bioc-bitseq_1.34.0+dfsg-1_amd64.deb Size: 1130580 MD5sum: 38921faf2d045f42c01d45634be580fa SHA256: 96195c0d50f9df2373c1d3b4798c87bab226d873e314977dc1c986dcbb0492af [bullseye-next] Package: r-bioc-bitseq Version: 1.34.0+dfsg-1 Installed-Size: 5998 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-bioc-rsamtools (>= 1.99.3), r-bioc-s4vectors, r-bioc-iranges, r-bioc-rhtslib (>= 1.15.5), libc6 (>= 2.29), libcurl4 (>= 7.18.0), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 5.2) Suggests: r-bioc-edger, r-bioc-deseq, r-bioc-biocstyle Description: transcript expression inference and analysis for RNA-seq data Homepage: https://bioconductor.org/packages/BitSeq/ Description-md5: 22ff866a439a9bfddee6c325ea799b9b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bitseq/r-bioc-bitseq_1.34.0+dfsg-1_amd64.deb Size: 1130580 MD5sum: 38921faf2d045f42c01d45634be580fa SHA256: 96195c0d50f9df2373c1d3b4798c87bab226d873e314977dc1c986dcbb0492af 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 --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye -d bullseye-next -B /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat --apt r-bioc-bitseq=1.34.0+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 1.3.1~202401311836~1.3-2-g28295102 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 --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye -d bullseye-next -B /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat --apt r-bioc-bitseq=1.34.0+dfsg-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-28-amd64 #1 SMP Debian 5.10.209-2 (2024-01-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpchag1c3l 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpchag1c3l 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m1.9s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m1.9s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/proc'] 0m1.9s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/proc'] 0m1.9s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/pts'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/pts'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/ptmx'] 0m2.0s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/ptmx'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/console'] 0m2.0s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/console'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/shm'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/shm'] 0m2.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m2.0s DEBUG: Created policy-rc.d and chmodded it. 0m2.0s DEBUG: Created resolv.conf. 0m2.0s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpchag1c3l/tmp/scripts/ 0m2.0s INFO: Running scripts post_chroot_unpack 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'update'] 0m5.4s DUMP: Get:1 http://deb.debian.org/debian bullseye InRelease [116 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 Packages [8068 kB] Get:3 http://deb.debian.org/debian bullseye/main Translation-en [6236 kB] Fetched 14.4 MB in 3s (5416 kB/s) Reading package lists... 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'update'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-yf', 'dist-upgrade'] 0m8.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: base-files libc-bin libc6 libgnutls30 perl-base tar tzdata 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 7841 kB of archives. After this operation, 44.0 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 base-files amd64 11.1+deb11u9 [70.2 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 perl-base amd64 5.32.1-4+deb11u3 [1628 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 tar amd64 1.34+dfsg-1+deb11u1 [847 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 libc6 amd64 2.31-13+deb11u8 [2823 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 libc-bin amd64 2.31-13+deb11u8 [829 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 libgnutls30 amd64 3.7.1-5+deb11u4 [1340 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 tzdata all 2024a-0+deb11u1 [304 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7841 kB in 0s (57.1 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6664 files and directories currently installed.) Preparing to unpack .../base-files_11.1+deb11u9_amd64.deb ... Unpacking base-files (11.1+deb11u9) over (11.1+deb11u8) ... Setting up base-files (11.1+deb11u9) ... Installing new version of config file /etc/debian_version ... (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 ... 6664 files and directories currently installed.) Preparing to unpack .../perl-base_5.32.1-4+deb11u3_amd64.deb ... Unpacking perl-base (5.32.1-4+deb11u3) over (5.32.1-4+deb11u2) ... Setting up perl-base (5.32.1-4+deb11u3) ... (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 ... 6664 files and directories currently installed.) Preparing to unpack .../tar_1.34+dfsg-1+deb11u1_amd64.deb ... Unpacking tar (1.34+dfsg-1+deb11u1) over (1.34+dfsg-1) ... Setting up tar (1.34+dfsg-1+deb11u1) ... (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 ... 6664 files and directories currently installed.) Preparing to unpack .../libc6_2.31-13+deb11u8_amd64.deb ... Unpacking libc6:amd64 (2.31-13+deb11u8) over (2.31-13+deb11u6) ... Setting up libc6:amd64 (2.31-13+deb11u8) ... (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 ... 6664 files and directories currently installed.) Preparing to unpack .../libc-bin_2.31-13+deb11u8_amd64.deb ... Unpacking libc-bin (2.31-13+deb11u8) over (2.31-13+deb11u6) ... Setting up libc-bin (2.31-13+deb11u8) ... (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 ... 6664 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.1-5+deb11u4_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.1-5+deb11u4) over (3.7.1-5+deb11u3) ... Setting up libgnutls30:amd64 (3.7.1-5+deb11u4) ... (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 ... 6664 files and directories currently installed.) Preparing to unpack .../tzdata_2024a-0+deb11u1_all.deb ... Unpacking tzdata (2024a-0+deb11u1) over (2021a-1+deb11u10) ... Setting up tzdata (2024a-0+deb11u1) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Feb 23 09:45:31 UTC 2024. Universal Time is now: Fri Feb 23 09:45:31 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Processing triggers for libc-bin (2.31-13+deb11u8) ... 0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-yf', 'dist-upgrade'] 0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m8.8s DUMP: 29fcf27583012b383113cec2bf757015 - 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m8.8s INFO: Running scripts post_setup 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_dummy_users'] 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_dummy_users'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_forbid_home'] 0m10.2s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_forbid_home'] 0m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_force-unsafe-io'] 0m10.2s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_force-unsafe-io'] 0m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_minimize'] 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_minimize'] 0m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_squeeze-backports'] 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_squeeze-backports'] 0m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_zz_backports'] 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_setup_zz_backports'] 0m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.2s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u9 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u8 install ok installed libc6:amd64 libc6 2.31-13+deb11u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u4 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1+deb11u1 install ok installed tzdata tzdata 2024a-0+deb11u1 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.2s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat 0m10.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m10.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m10.6s INFO: Running scripts is_testable 0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/is_testable_uninstallable'] 0m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/is_testable_uninstallable'] 0m10.6s INFO: Running scripts pre_test 0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_test_exceptions'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_test_exceptions'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_test_root_password'] 0m10.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_test_root_password'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bitseq'] 0m10.9s DUMP: Package: r-bioc-bitseq Version: 1.34.0+dfsg-1 Installed-Size: 5998 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-bioc-rsamtools (>= 1.99.3), r-bioc-s4vectors, r-bioc-iranges, r-bioc-rhtslib (>= 1.15.5), libc6 (>= 2.29), libcurl4 (>= 7.18.0), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 5.2) Suggests: r-bioc-edger, r-bioc-deseq, r-bioc-biocstyle Description-en: transcript expression inference and analysis for RNA-seq data The BitSeq package is targeted for transcript expression analysis and differential expression analysis of RNA-seq data in two stage process. In the first stage it uses Bayesian inference methodology to infer expression of individual transcripts from individual RNA-seq experiments. The second stage of BitSeq embraces the differential expression analysis of transcript expression. Providing expression estimates from replicates of multiple conditions, Log-Normal model of the estimates is used for inferring the condition mean transcript expression and ranking the transcripts based on the likelihood of differential expression. Description-md5: 22ff866a439a9bfddee6c325ea799b9b Homepage: https://bioconductor.org/packages/BitSeq/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bitseq/r-bioc-bitseq_1.34.0+dfsg-1_amd64.deb Size: 1130580 MD5sum: 38921faf2d045f42c01d45634be580fa SHA256: 96195c0d50f9df2373c1d3b4798c87bab226d873e314977dc1c986dcbb0492af 0m10.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bitseq'] 0m10.9s INFO: apt-cache knows about the following packages: r-bioc-bitseq 0m10.9s INFO: Running scripts pre_install 0m10.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_database-server'] 0m10.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_database-server'] 0m10.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_exceptions'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_exceptions'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_extras'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_extras'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy'] 0m11.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.9,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy', 'r-bioc-bitseq'] 0m11.1s DUMP: r-bioc-bitseq: Installed: (none) Candidate: 1.34.0+dfsg-1 Version table: 1.34.0+dfsg-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy', 'r-bioc-bitseq'] 0m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-y', 'install', 'r-bioc-bitseq'] 0m35.2s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core libasan6 libatomic1 libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libicu67 libitm1 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 liblsan0 libmd0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh2-1 libstdc++-10-dev libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-dev libtk8.6 libtsan0 libubsan1 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6 linux-libc-dev openssl r-base-core r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-rhtslib r-bioc-rsamtools r-bioc-s4vectors r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-crayon r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-rcurl r-cran-snow readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev Suggested packages: libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev glibc-doc manpages-dev libstdc++-10-doc tcl8.6 tk8.6 elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-bioc-biobase r-bioc-delayedarray r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-foreach r-cran-bbmisc r-bioc-variantannotation r-bioc-genomicalignments r-bioc-shortread r-cran-codetools r-bioc-biocstyle r-cran-knitr r-cran-data.table r-bioc-bsgenome r-bioc-genomicfeatures r-bioc-edger r-bioc-deseq r-cran-matrix r-bioc-rtracklayer r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq r-bioc-summarizedexperiment r-bioc-graph r-cran-rstudioapi r-cran-shiny r-cran-rmarkdown r-cran-jsonlite r-cran-xml r-cran-rmpi r-cran-rsprng r-cran-rlecuyer readline-doc Recommended packages: manpages manpages-dev libc-devtools libglib2.0-data shared-mime-info xdg-user-dirs libldap-common publicsuffix libsasl2-modules r-recommended r-base-dev r-doc-html r-cran-runit r-cran-batchjobs r-cran-doparallel r-cran-batchtools r-cran-rmpi r-cran-digest r-bioc-annotate r-bioc-summarizedexperiment r-bioc-shortread r-cran-testthat r-cran-withr r-cran-mockery r-cran-testit r-cran-codetools r-cran-survival libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core libasan6 libatomic1 libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libicu67 libitm1 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 liblsan0 libmd0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh2-1 libstdc++-10-dev libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-dev libtk8.6 libtsan0 libubsan1 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6 linux-libc-dev openssl r-base-core r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings r-bioc-bitseq r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-rhtslib r-bioc-rsamtools r-bioc-s4vectors r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-crayon r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-rcurl r-cran-snow readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 109 newly installed, 0 to remove and 0 not upgraded. Need to get 122 MB of archives. After this operation, 412 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 openssl amd64 1.1.1w-0+deb11u1 [859 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 ca-certificates all 20210119 [158 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1+deb11u1 [418 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 fontconfig amd64 2.13.1-4.2 [417 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 libasan6 amd64 10.2.1-6 [2065 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 libatomic1 amd64 10.2.1-6 [9008 B] Get:17 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3+deb11u1 [153 kB] Get:18 http://deb.debian.org/debian bullseye/main amd64 libgomp1 amd64 10.2.1-6 [99.9 kB] Get:19 http://deb.debian.org/debian bullseye/main amd64 libitm1 amd64 10.2.1-6 [25.8 kB] Get:20 http://deb.debian.org/debian bullseye/main amd64 liblsan0 amd64 10.2.1-6 [828 kB] Get:21 http://deb.debian.org/debian bullseye/main amd64 libtsan0 amd64 10.2.1-6 [2000 kB] Get:22 http://deb.debian.org/debian bullseye/main amd64 libubsan1 amd64 10.2.1-6 [777 kB] Get:23 http://deb.debian.org/debian bullseye/main amd64 libquadmath0 amd64 10.2.1-6 [145 kB] Get:24 http://deb.debian.org/debian bullseye/main amd64 libgcc-10-dev amd64 10.2.1-6 [2328 kB] Get:25 http://deb.debian.org/debian bullseye/main amd64 libc-dev-bin amd64 2.31-13+deb11u8 [276 kB] Get:26 http://deb.debian.org/debian bullseye/main amd64 linux-libc-dev amd64 5.10.209-2 [1698 kB] Get:27 http://deb.debian.org/debian bullseye/main amd64 libcrypt-dev amd64 1:4.4.18-4 [104 kB] Get:28 http://deb.debian.org/debian bullseye/main amd64 libtirpc-dev amd64 1.3.1-1+deb11u1 [191 kB] Get:29 http://deb.debian.org/debian bullseye/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:30 http://deb.debian.org/debian bullseye/main amd64 libc6-dev amd64 2.31-13+deb11u8 [2361 kB] Get:31 http://deb.debian.org/debian bullseye/main amd64 libstdc++-10-dev amd64 10.2.1-6 [1741 kB] Get:32 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get:33 http://deb.debian.org/debian bullseye/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get:34 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get:35 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1+deb11u1 [108 kB] Get:36 http://deb.debian.org/debian bullseye/main amd64 libpixman-1-0 amd64 0.40.0-1.1~deb11u1 [543 kB] Get:37 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:38 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:39 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get:40 http://deb.debian.org/debian bullseye/main amd64 libx11-data all 2:1.7.2-1+deb11u2 [311 kB] Get:41 http://deb.debian.org/debian bullseye/main amd64 libx11-6 amd64 2:1.7.2-1+deb11u2 [772 kB] Get:42 http://deb.debian.org/debian bullseye/main amd64 libxcb-render0 amd64 1.14-3 [111 kB] Get:43 http://deb.debian.org/debian bullseye/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 libcairo2 amd64 1.16.0-5 [694 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1+deb11u1 [69.1 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1+deb11u1 [106 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3+deb11u1 [232 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1+deb11u1 [77.2 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:52 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:53 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get:54 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u11 [347 kB] Get:55 http://deb.debian.org/debian bullseye/main amd64 libdatrie1 amd64 0.2.13-1 [42.7 kB] Get:56 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get:57 http://deb.debian.org/debian bullseye/main amd64 libfribidi0 amd64 1.0.8-2+deb11u1 [64.9 kB] Get:58 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:59 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1+deb11u1 [1374 kB] Get:60 http://deb.debian.org/debian bullseye/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:61 http://deb.debian.org/debian bullseye/main amd64 libharfbuzz0b amd64 2.7.4-1 [1471 kB] Get:62 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get:63 http://deb.debian.org/debian bullseye/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:64 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get:65 http://deb.debian.org/debian bullseye/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:66 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get:67 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get:68 http://deb.debian.org/debian bullseye/main amd64 libthai-data all 0.1.28-3 [170 kB] Get:69 http://deb.debian.org/debian bullseye/main amd64 libthai0 amd64 0.1.28-3 [54.2 kB] Get:70 http://deb.debian.org/debian bullseye/main amd64 libpango-1.0-0 amd64 1.46.2-3 [191 kB] Get:71 http://deb.debian.org/debian bullseye/main amd64 libpangoft2-1.0-0 amd64 1.46.2-3 [62.2 kB] Get:72 http://deb.debian.org/debian bullseye/main amd64 libpangocairo-1.0-0 amd64 1.46.2-3 [50.6 kB] Get:73 http://deb.debian.org/debian bullseye/main amd64 libpaper1 amd64 1.1.28+b1 [21.6 kB] Get:74 http://deb.debian.org/debian bullseye/main amd64 libpaper-utils amd64 1.1.28+b1 [18.3 kB] Get:75 http://deb.debian.org/debian bullseye/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:76 http://deb.debian.org/debian bullseye/main amd64 libtcl8.6 amd64 8.6.11+dfsg-1 [1018 kB] Get:77 http://deb.debian.org/debian bullseye/main amd64 libwebp6 amd64 0.6.1-2.1+deb11u2 [259 kB] Get:78 http://deb.debian.org/debian bullseye/main amd64 libtiff5 amd64 4.2.0-1+deb11u5 [290 kB] Get:79 http://deb.debian.org/debian bullseye/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:80 http://deb.debian.org/debian bullseye/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:81 http://deb.debian.org/debian bullseye/main amd64 libtk8.6 amd64 8.6.11-2 [780 kB] Get:82 http://deb.debian.org/debian bullseye/main amd64 libxt6 amd64 1:1.2.0-1 [189 kB] Get:83 http://deb.debian.org/debian bullseye/main amd64 zip amd64 3.0-12 [232 kB] Get:84 http://deb.debian.org/debian bullseye/main amd64 unzip amd64 6.0-26+deb11u1 [172 kB] Get:85 http://deb.debian.org/debian bullseye/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:86 http://deb.debian.org/debian bullseye/main amd64 r-base-core amd64 4.0.4-1 [25.1 MB] Get:87 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocgenerics all 0.36.0-1 [648 kB] Get:88 http://deb.debian.org/debian bullseye/main amd64 r-cran-formatr all 1.7-2 [151 kB] Get:89 http://deb.debian.org/debian bullseye/main amd64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get:90 http://deb.debian.org/debian bullseye/main amd64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get:91 http://deb.debian.org/debian bullseye/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get:92 http://deb.debian.org/debian bullseye/main amd64 r-cran-snow all 1:0.4.3-2 [109 kB] Get:93 http://deb.debian.org/debian bullseye/main amd64 r-cran-bh all 1.74.0-1 [5196 B] Get:94 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocparallel amd64 1.24.1-1 [1143 kB] Get:95 http://deb.debian.org/debian bullseye/main amd64 r-bioc-s4vectors amd64 0.28.1-1 [2027 kB] Get:96 http://deb.debian.org/debian bullseye/main amd64 r-bioc-iranges amd64 2.24.1-1 [2202 kB] Get:97 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2+deb11u2 [191 kB] Get:98 http://deb.debian.org/debian bullseye/main amd64 r-bioc-zlibbioc all 1.36.0+dfsg-1 [8824 B] Get:99 http://deb.debian.org/debian bullseye/main amd64 r-bioc-xvector amd64 0.30.0-1 [620 kB] Get:100 http://deb.debian.org/debian bullseye/main amd64 r-cran-crayon all 1.4.0-1 [143 kB] Get:101 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biostrings amd64 2.58.0-1 [14.2 MB] Get:102 http://deb.debian.org/debian bullseye/main amd64 r-cran-bitops amd64 1.0-6-5 [23.6 kB] Get:103 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcurl amd64 1.98-1.2-1+b1 [787 kB] Get:104 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomeinfodbdata all 1.2.4-1 [10.7 MB] Get:105 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomeinfodb all 1.26.2-2 [3905 kB] Get:106 http://deb.debian.org/debian bullseye/main amd64 r-bioc-genomicranges amd64 1.42.0+dfsg-1 [1856 kB] Get:107 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rhtslib amd64 1.22.0+dfsg-1 [1024 kB] Get:108 http://deb.debian.org/debian bullseye/main amd64 r-bioc-rsamtools amd64 2.6.0-1 [3659 kB] Get:109 http://deb.debian.org/debian bullseye/main amd64 r-bioc-bitseq amd64 1.34.0+dfsg-1 [1131 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 122 MB in 2s (77.9 MB/s) Selecting previously unselected package readline-common. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6672 files and directories currently installed.) Preparing to unpack .../000-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../001-libreadline8_8.1-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.14_all.deb ... 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Unpacking libcurl4:amd64 (7.74.0-1.3+deb11u11) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../054-libdatrie1_0.2.13-1_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.13-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../055-libdeflate0_1.7-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.7-1) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../056-libfribidi0_1.0.8-2+deb11u1_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.8-2+deb11u1) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../057-libgfortran5_10.2.1-6_amd64.deb ... Unpacking libgfortran5:amd64 (10.2.1-6) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../058-libglib2.0-0_2.66.8-1+deb11u1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.66.8-1+deb11u1) ... Selecting previously unselected package libgraphite2-3:amd64. 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Selecting previously unselected package libpangocairo-1.0-0:amd64. Preparing to unpack .../071-libpangocairo-1.0-0_1.46.2-3_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.46.2-3) ... Selecting previously unselected package libpaper1:amd64. Preparing to unpack .../072-libpaper1_1.1.28+b1_amd64.deb ... Unpacking libpaper1:amd64 (1.1.28+b1) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../073-libpaper-utils_1.1.28+b1_amd64.deb ... Unpacking libpaper-utils (1.1.28+b1) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../074-libsm6_2%3a1.2.3-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.3-1) ... Selecting previously unselected package libtcl8.6:amd64. Preparing to unpack .../075-libtcl8.6_8.6.11+dfsg-1_amd64.deb ... Unpacking libtcl8.6:amd64 (8.6.11+dfsg-1) ... Selecting previously unselected package libwebp6:amd64. Preparing to unpack .../076-libwebp6_0.6.1-2.1+deb11u2_amd64.deb ... Unpacking libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../077-libtiff5_4.2.0-1+deb11u5_amd64.deb ... Unpacking libtiff5:amd64 (4.2.0-1+deb11u5) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../078-libxft2_2.3.2-2_amd64.deb ... Unpacking libxft2:amd64 (2.3.2-2) ... Selecting previously unselected package libxss1:amd64. Preparing to unpack .../079-libxss1_1%3a1.2.3-1_amd64.deb ... Unpacking libxss1:amd64 (1:1.2.3-1) ... Selecting previously unselected package libtk8.6:amd64. Preparing to unpack .../080-libtk8.6_8.6.11-2_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.11-2) ... Selecting previously unselected package libxt6:amd64. Preparing to unpack .../081-libxt6_1%3a1.2.0-1_amd64.deb ... Unpacking libxt6:amd64 (1:1.2.0-1) ... Selecting previously unselected package zip. Preparing to unpack .../082-zip_3.0-12_amd64.deb ... Unpacking zip (3.0-12) ... 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Preparing to unpack .../095-r-bioc-iranges_2.24.1-1_amd64.deb ... Unpacking r-bioc-iranges (2.24.1-1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../096-zlib1g-dev_1%3a1.2.11.dfsg-2+deb11u2_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Selecting previously unselected package r-bioc-zlibbioc. Preparing to unpack .../097-r-bioc-zlibbioc_1.36.0+dfsg-1_all.deb ... Unpacking r-bioc-zlibbioc (1.36.0+dfsg-1) ... Selecting previously unselected package r-bioc-xvector. Preparing to unpack .../098-r-bioc-xvector_0.30.0-1_amd64.deb ... Unpacking r-bioc-xvector (0.30.0-1) ... Selecting previously unselected package r-cran-crayon. Preparing to unpack .../099-r-cran-crayon_1.4.0-1_all.deb ... Unpacking r-cran-crayon (1.4.0-1) ... Selecting previously unselected package r-bioc-biostrings. Preparing to unpack .../100-r-bioc-biostrings_2.58.0-1_amd64.deb ... Unpacking r-bioc-biostrings (2.58.0-1) ... Selecting previously unselected package r-cran-bitops. Preparing to unpack .../101-r-cran-bitops_1.0-6-5_amd64.deb ... Unpacking r-cran-bitops (1.0-6-5) ... Selecting previously unselected package r-cran-rcurl. Preparing to unpack .../102-r-cran-rcurl_1.98-1.2-1+b1_amd64.deb ... Unpacking r-cran-rcurl (1.98-1.2-1+b1) ... Selecting previously unselected package r-bioc-genomeinfodbdata. Preparing to unpack .../103-r-bioc-genomeinfodbdata_1.2.4-1_all.deb ... Unpacking r-bioc-genomeinfodbdata (1.2.4-1) ... Selecting previously unselected package r-bioc-genomeinfodb. Preparing to unpack .../104-r-bioc-genomeinfodb_1.26.2-2_all.deb ... Unpacking r-bioc-genomeinfodb (1.26.2-2) ... Selecting previously unselected package r-bioc-genomicranges. Preparing to unpack .../105-r-bioc-genomicranges_1.42.0+dfsg-1_amd64.deb ... Unpacking r-bioc-genomicranges (1.42.0+dfsg-1) ... Selecting previously unselected package r-bioc-rhtslib. Preparing to unpack .../106-r-bioc-rhtslib_1.22.0+dfsg-1_amd64.deb ... Unpacking r-bioc-rhtslib (1.22.0+dfsg-1) ... Selecting previously unselected package r-bioc-rsamtools. Preparing to unpack .../107-r-bioc-rsamtools_2.6.0-1_amd64.deb ... Unpacking r-bioc-rsamtools (2.6.0-1) ... Selecting previously unselected package r-bioc-bitseq. Preparing to unpack .../108-r-bioc-bitseq_1.34.0+dfsg-1_amd64.deb ... Unpacking r-bioc-bitseq (1.34.0+dfsg-1) ... Setting up libexpat1:amd64 (2.2.10-2+deb11u5) ... Setting up libgraphite2-3:amd64 (1.3.14-1) ... Setting up libpixman-1-0:amd64 (0.40.0-1.1~deb11u1) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libdatrie1:amd64 (0.2.13-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1+deb11u1) ... No schema files found: doing nothing. Setting up unzip (6.0-26+deb11u1) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up linux-libc-dev:amd64 (5.10.209-2) ... Setting up libgomp1:amd64 (10.2.1-6) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libasan6:amd64 (10.2.1-6) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up zip (3.0-12) ... Setting up libblas3:amd64 (3.9.0-3+deb11u1) ... 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 libtirpc-dev:amd64 (1.3.1-1+deb11u1) ... Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libx11-data (2:1.7.2-1+deb11u2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libfribidi0:amd64 (1.0.8-2+deb11u1) ... Setting up libquadmath0:amd64 (10.2.1-6) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libatomic1:amd64 (10.2.1-6) ... Setting up libtcl8.6:amd64 (8.6.11+dfsg-1) ... Setting up libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libubsan1:amd64 (10.2.1-6) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up sensible-utils (0.0.14) ... Setting up libcrypt-dev:amd64 (1:4.4.18-4) ... Setting up libthai-data (0.1.28-3) ... Setting up libssh2-1:amd64 (1.9.0-2) ... Setting up libtiff5:amd64 (4.2.0-1+deb11u5) ... Setting up libc-dev-bin (2.31-13+deb11u8) ... Setting up openssl (1.1.1w-0+deb11u1) ... Setting up libbsd0:amd64 (0.11.3-1+deb11u1) ... Setting up readline-common (8.1-1) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up liblsan0:amd64 (10.2.1-6) ... Setting up libitm1:amd64 (10.2.1-6) ... Setting up libtsan0:amd64 (10.2.1-6) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.9.0-3+deb11u1) ... 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 libxcb1:amd64 (1.14-3) ... Setting up libxcb-render0:amd64 (1.14-3) ... Setting up libgcc-10-dev:amd64 (10.2.1-6) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Setting up libxcb-shm0:amd64 (1.14-3) ... Setting up libthai0:amd64 (0.1.28-3) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. Setting up libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up ucf (3.0043) ... Setting up libcurl4:amd64 (7.74.0-1.3+deb11u11) ... Setting up libc6-dev:amd64 (2.31-13+deb11u8) ... Setting up libx11-6:amd64 (2:1.7.2-1+deb11u2) ... Setting up libharfbuzz0b:amd64 (2.7.4-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libpaper1:amd64 (1.1.28+b1) ... Creating config file /etc/papersize with new version Setting up libstdc++-10-dev:amd64 (10.2.1-6) ... Setting up libboost1.74-dev:amd64 (1.74.0-9) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up libxext6:amd64 (2:1.3.3-1.1) ... Setting up libpaper-utils (1.1.28+b1) ... Setting up libxt6:amd64 (1:1.2.0-1) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up r-cran-bh (1.74.0-1) ... Setting up fontconfig (2.13.1-4.2) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.2-2) ... Setting up libtk8.6:amd64 (8.6.11-2) ... Setting up libpango-1.0-0:amd64 (1.46.2-3) ... Setting up libcairo2:amd64 (1.16.0-5) ... Setting up libpangoft2-1.0-0:amd64 (1.46.2-3) ... Setting up libpangocairo-1.0-0:amd64 (1.46.2-3) ... Setting up r-base-core (4.0.4-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.4.0-1) ... Setting up r-cran-futile.options (1.0.1-3) ... Setting up r-cran-formatr (1.7-2) ... Setting up r-bioc-genomeinfodbdata (1.2.4-1) ... Setting up r-bioc-biocgenerics (0.36.0-1) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up r-cran-snow (1:0.4.3-2) ... Setting up r-cran-bitops (1.0-6-5) ... Setting up r-bioc-zlibbioc (1.36.0+dfsg-1) ... Setting up r-bioc-s4vectors (0.28.1-1) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up r-bioc-iranges (2.24.1-1) ... Setting up r-cran-rcurl (1.98-1.2-1+b1) ... Setting up r-bioc-biocparallel (1.24.1-1) ... Setting up r-bioc-rhtslib (1.22.0+dfsg-1) ... Setting up r-bioc-genomeinfodb (1.26.2-2) ... Setting up r-bioc-xvector (0.30.0-1) ... Setting up r-bioc-genomicranges (1.42.0+dfsg-1) ... Setting up r-bioc-biostrings (2.58.0-1) ... Setting up r-bioc-rsamtools (2.6.0-1) ... Setting up r-bioc-bitseq (1.34.0+dfsg-1) ... Processing triggers for libc-bin (2.31-13+deb11u8) ... Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-y', 'install', 'r-bioc-bitseq'] 0m35.2s INFO: Running scripts post_install 0m35.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_install_exceptions'] 0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_install_exceptions'] 0m35.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m36.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m36.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpchag1c3l to bullseye-next 0m36.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main deb http://security.debian.org bullseye-security main deb http://deb.debian.org/debian/ bullseye-updates main deb http://deb.debian.org/debian/ bullseye-proposed-updates main 0m36.2s INFO: Running scripts pre_distupgrade 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_exceptions'] 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_exceptions'] 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'update'] 0m38.0s DUMP: Get:1 http://security.debian.org bullseye-security InRelease [48.4 kB] Hit:2 http://deb.debian.org/debian bullseye InRelease Get:3 http://deb.debian.org/debian bullseye-updates InRelease [44.1 kB] Get:4 http://deb.debian.org/debian bullseye-proposed-updates InRelease [54.0 kB] Get:5 http://security.debian.org bullseye-security/main amd64 Packages [268 kB] Get:6 http://security.debian.org bullseye-security/main Translation-en [173 kB] Get:7 http://deb.debian.org/debian bullseye-updates/main amd64 Packages [18.8 kB] Get:8 http://deb.debian.org/debian bullseye-updates/main Translation-en [10.9 kB] Get:9 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages [11.1 kB] Get:10 http://deb.debian.org/debian bullseye-proposed-updates/main Translation-en [8493 B] Fetched 637 kB in 1s (676 kB/s) Reading package lists... 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'update'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', '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/tmpchag1c3l', 'apt-get', '-yf', 'dist-upgrade'] 0m38.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.7s DUMP: 3d50db4ad80aad5679d5e06c3fafa33e - 0m38.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bitseq'] 0m39.0s DUMP: Package: r-bioc-bitseq Version: 1.34.0+dfsg-1 Installed-Size: 5998 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-bioc-rsamtools (>= 1.99.3), r-bioc-s4vectors, r-bioc-iranges, r-bioc-rhtslib (>= 1.15.5), libc6 (>= 2.29), libcurl4 (>= 7.18.0), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 5.2) Suggests: r-bioc-edger, r-bioc-deseq, r-bioc-biocstyle Description-en: transcript expression inference and analysis for RNA-seq data The BitSeq package is targeted for transcript expression analysis and differential expression analysis of RNA-seq data in two stage process. In the first stage it uses Bayesian inference methodology to infer expression of individual transcripts from individual RNA-seq experiments. The second stage of BitSeq embraces the differential expression analysis of transcript expression. Providing expression estimates from replicates of multiple conditions, Log-Normal model of the estimates is used for inferring the condition mean transcript expression and ranking the transcripts based on the likelihood of differential expression. Description-md5: 22ff866a439a9bfddee6c325ea799b9b Homepage: https://bioconductor.org/packages/BitSeq/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-bitseq/r-bioc-bitseq_1.34.0+dfsg-1_amd64.deb Size: 1130580 MD5sum: 38921faf2d045f42c01d45634be580fa SHA256: 96195c0d50f9df2373c1d3b4798c87bab226d873e314977dc1c986dcbb0492af 0m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-bitseq'] 0m39.0s INFO: apt-cache knows about the following packages: r-bioc-bitseq 0m39.0s INFO: Running scripts pre_install 0m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_database-server'] 0m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_database-server'] 0m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_exceptions'] 0m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_exceptions'] 0m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_extras'] 0m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_extras'] 0m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy'] 0m39.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-proposed-updates,n=bullseye-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bullseye-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-updates,n=bullseye-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bullseye-security/main amd64 Packages release v=11,o=Debian,a=oldstable-security,n=bullseye-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.9,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy', 'r-bioc-bitseq'] 0m39.2s DUMP: r-bioc-bitseq: Installed: 1.34.0+dfsg-1 Candidate: 1.34.0+dfsg-1 Version table: *** 1.34.0+dfsg-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy', 'r-bioc-bitseq'] 0m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-y', 'install', 'r-bioc-bitseq'] 0m39.6s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-bitseq is already the newest version (1.34.0+dfsg-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-y', 'install', 'r-bioc-bitseq'] 0m39.6s INFO: Running scripts post_install 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_install_exceptions'] 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_install_exceptions'] 0m39.6s INFO: Running scripts post_distupgrade 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_exceptions'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_exceptions'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_zz_backports'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_distupgrade_zz_backports'] 0m39.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m40.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m40.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m41.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m41.7s INFO: Running scripts pre_install 0m41.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_database-server'] 0m41.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_database-server'] 0m41.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_exceptions'] 0m41.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_exceptions'] 0m41.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_extras'] 0m41.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_extras'] 0m41.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture'] 0m41.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture'] 0m41.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m41.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m41.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy'] 0m41.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-proposed-updates,n=bullseye-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bullseye-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-updates,n=bullseye-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bullseye-security/main amd64 Packages release v=11,o=Debian,a=oldstable-security,n=bullseye-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.9,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m41.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy'] 0m41.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy', 'r-bioc-bitseq'] 0m41.9s DUMP: r-bioc-bitseq: Installed: 1.34.0+dfsg-1 Candidate: 1.34.0+dfsg-1 Version table: *** 1.34.0+dfsg-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m41.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-cache', 'policy', 'r-bioc-bitseq'] 0m41.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-y', 'install', 'r-bioc-bitseq=1.34.0+dfsg-1'] 0m42.3s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-bitseq is already the newest version (1.34.0+dfsg-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', '-y', 'install', 'r-bioc-bitseq=1.34.0+dfsg-1'] 0m42.3s INFO: Running scripts post_install 0m42.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_install_exceptions'] 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_install_exceptions'] 0m42.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m43.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m43.6s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m43.7s INFO: /bin converted to /usr/bin by /usr merge 0m43.7s INFO: /lib converted to /usr/lib by /usr merge 0m43.7s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m43.7s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m43.7s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m43.7s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m43.7s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m43.7s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m43.7s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m43.7s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m43.7s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m43.7s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m43.7s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m43.7s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m43.7s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m43.7s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m43.7s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m43.7s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m43.7s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m43.7s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m43.7s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m43.7s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m43.7s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m43.7s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m43.7s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m43.7s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m43.7s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m43.7s INFO: /sbin converted to /usr/sbin by /usr merge 0m45.5s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', '-ac', '--ignore-obsolete'] 0m48.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', '-ac', '--ignore-obsolete'] 0m48.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m48.5s DUMP: 0.15.6 0m48.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m48.5s INFO: Running adequate version 0.15.6 now. 0m48.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'r-bioc-bitseq'] 0m48.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'r-bioc-bitseq'] 0m48.6s INFO: Running scripts pre_remove 0m48.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m48.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m48.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m48.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m48.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m54.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m54.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_exceptions'] 0m55.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/pre_remove_exceptions'] 0m55.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m55.2s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u9 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed ca-certificates ca-certificates 20210119 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed fontconfig fontconfig 2.13.1-4.2 install ok installed fontconfig-config fontconfig-config 2.13.1-4.2 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-2 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libasan6:amd64 libasan6 10.2.1-6 install ok installed libatomic1:amd64 libatomic1 10.2.1-6 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblas3:amd64 libblas3 3.9.0-3+deb11u1 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libboost-dev:amd64 libboost-dev 1.74.0.3 install ok installed libboost1.74-dev:amd64 libboost1.74-dev 1.74.0-9 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b2 install ok installed libbsd0:amd64 libbsd0 0.11.3-1+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u8 install ok installed libc-dev-bin libc-dev-bin 2.31-13+deb11u8 install ok installed libc6:amd64 libc6 2.31-13+deb11u8 install ok installed libc6-dev:amd64 libc6-dev 2.31-13+deb11u8 install ok installed libcairo2:amd64 libcairo2 1.16.0-5 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.18-4 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libcurl4:amd64 libcurl4 7.74.0-1.3+deb11u11 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libdeflate0:amd64 libdeflate0 1.7-1 install ok installed libexpat1:amd64 libexpat1 2.2.10-2+deb11u5 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-4.2 install ok installed libfreetype6:amd64 libfreetype6 2.10.4+dfsg-1+deb11u1 install ok installed libfribidi0:amd64 libfribidi0 1.0.8-2+deb11u1 install ok installed libgcc-10-dev:amd64 libgcc-10-dev 10.2.1-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgfortran5:amd64 libgfortran5 10.2.1-6 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.66.8-1+deb11u1 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u4 install ok installed libgomp1:amd64 libgomp1 10.2.1-6 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 2.7.4-1 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libice6:amd64 libice6 2:1.0.10-1 install ok installed libicu67:amd64 libicu67 67.1-7 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libitm1:amd64 libitm1 10.2.1-6 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.0.6-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblapack3:amd64 liblapack3 3.9.0-3+deb11u1 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.57+dfsg-3+deb11u1 install ok installed liblsan0:amd64 liblsan0 10.2.1-6 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmd0:amd64 libmd0 1.0.3-3 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.43.0-1+deb11u1 install ok installed libnsl-dev:amd64 libnsl-dev 1.3.0-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.46.2-3 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.46.2-3 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.46.2-3 install ok installed libpaper-utils libpaper-utils 1.1.28+b1 install ok installed libpaper1:amd64 libpaper1 1.1.28+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.40.0-1.1~deb11u1 install ok installed libpng16-16:amd64 libpng16-16 1.6.37-3 install ok installed libpsl5:amd64 libpsl5 0.21.0-1.2 install ok installed libquadmath0:amd64 libquadmath0 10.2.1-6 install ok installed libreadline8:amd64 libreadline8 8.1-1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27+dfsg-2.1+deb11u1 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27+dfsg-2.1+deb11u1 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsm6:amd64 libsm6 2:1.2.3-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssh2-1:amd64 libssh2-1 1.9.0-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++-10-dev:amd64 libstdc++-10-dev 10.2.1-6 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.11+dfsg-1 install ok installed libthai-data libthai-data 0.1.28-3 install ok installed libthai0:amd64 libthai0 0.1.28-3 install ok installed libtiff5:amd64 libtiff5 4.2.0-1+deb11u5 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc-dev:amd64 libtirpc-dev 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libtk8.6:amd64 libtk8.6 8.6.11-2 install ok installed libtsan0:amd64 libtsan0 10.2.1-6 install ok installed libubsan1:amd64 libubsan1 10.2.1-6 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libwebp6:amd64 libwebp6 0.6.1-2.1+deb11u2 install ok installed libx11-6:amd64 libx11-6 2:1.7.2-1+deb11u2 install ok installed libx11-data libx11-data 2:1.7.2-1+deb11u2 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.14-3 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.14-3 install ok installed libxcb1:amd64 libxcb1 1.14-3 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.3-1.1 install ok installed libxft2:amd64 libxft2 2.3.2-2 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1 install ok installed libxt6:amd64 libxt6 1:1.2.0-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed linux-libc-dev:amd64 linux-libc-dev 5.10.209-2 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed openssl openssl 1.1.1w-0+deb11u1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed r-base-core r-base-core 4.0.4-1 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.36.0-1 install ok installed r-bioc-biocparallel r-bioc-biocparallel 1.24.1-1 install ok installed r-bioc-biostrings r-bioc-biostrings 2.58.0-1 install ok installed r-bioc-bitseq r-bioc-bitseq 1.34.0+dfsg-1 install ok installed r-bioc-genomeinfodb r-bioc-genomeinfodb 1.26.2-2 install ok installed r-bioc-genomeinfodbdata r-bioc-genomeinfodbdata 1.2.4-1 install ok installed r-bioc-genomicranges r-bioc-genomicranges 1.42.0+dfsg-1 install ok installed r-bioc-iranges r-bioc-iranges 2.24.1-1 install ok installed r-bioc-rhtslib r-bioc-rhtslib 1.22.0+dfsg-1 install ok installed r-bioc-rsamtools r-bioc-rsamtools 2.6.0-1 install ok installed r-bioc-s4vectors r-bioc-s4vectors 0.28.1-1 install ok installed r-bioc-xvector r-bioc-xvector 0.30.0-1 install ok installed r-bioc-zlibbioc r-bioc-zlibbioc 1.36.0+dfsg-1 install ok installed r-cran-bh r-cran-bh 1.74.0-1 install ok installed r-cran-bitops r-cran-bitops 1.0-6-5 install ok installed r-cran-crayon r-cran-crayon 1.4.0-1 install ok installed r-cran-formatr r-cran-formatr 1.7-2 install ok installed r-cran-futile.logger r-cran-futile.logger 1.4.3-4 install ok installed r-cran-futile.options r-cran-futile.options 1.0.1-3 install ok installed r-cran-lambda.r r-cran-lambda.r 1.2.4-2 install ok installed r-cran-rcurl r-cran-rcurl 1.98-1.2-1+b1 install ok installed r-cran-snow r-cran-snow 1:0.4.3-2 install ok installed readline-common readline-common 8.1-1 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.14 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1+deb11u1 install ok installed tzdata tzdata 2024a-0+deb11u1 install ok installed ucf ucf 3.0043 install ok installed unzip unzip 6.0-26+deb11u1 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed x11-common x11-common 1:7.7+22 install ok installed xdg-utils xdg-utils 1.1.3-4.1 install ok installed zip zip 3.0-12 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.2.11.dfsg-2+deb11u2 0m55.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m55.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'libasan6:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libice6:amd64', 'libicu67:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'liblsan0:amd64', 'libmd0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libssh2-1:amd64', 'libstdc++-10-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libwebp6: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', 'libxt6:amd64', 'linux-libc-dev:amd64', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-s4vectors', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-crayon', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-rcurl', 'r-cran-snow', 'readline-common', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-bitseq'] 0m57.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates fontconfig fontconfig-config fonts-dejavu-core libasan6 libatomic1 libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libicu67 libitm1 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 liblsan0 libmd0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh2-1 libstdc++-10-dev libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-dev libtk8.6 libtsan0 libubsan1 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6 linux-libc-dev openssl r-base-core r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings r-bioc-bitseq r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-rhtslib r-bioc-rsamtools r-bioc-s4vectors r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-crayon r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-rcurl r-cran-snow readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 0 newly installed, 109 to remove and 0 not upgraded. After this operation, 412 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 ... 28961 files and directories currently installed.) Removing r-bioc-bitseq (1.34.0+dfsg-1) ... Removing r-bioc-rsamtools (2.6.0-1) ... Removing r-bioc-biocparallel (1.24.1-1) ... Removing r-cran-snow (1:0.4.3-2) ... Removing r-bioc-genomicranges (1.42.0+dfsg-1) ... Removing r-bioc-genomeinfodb (1.26.2-2) ... Removing r-cran-rcurl (1.98-1.2-1+b1) ... Removing r-cran-futile.logger (1.4.3-4) ... Removing r-cran-lambda.r (1.2.4-2) ... Removing r-cran-futile.options (1.0.1-3) ... Removing r-cran-bh (1.74.0-1) ... Removing libboost-dev:amd64 (1.74.0.3) ... Removing libboost1.74-dev:amd64 (1.74.0-9) ... Removing libstdc++-10-dev:amd64 (10.2.1-6) ... Removing libgcc-10-dev:amd64 (10.2.1-6) ... Removing libasan6:amd64 (10.2.1-6) ... Removing libatomic1:amd64 (10.2.1-6) ... Removing r-bioc-rhtslib (1.22.0+dfsg-1) ... Removing r-bioc-biostrings (2.58.0-1) ... Removing r-bioc-xvector (0.30.0-1) ... Removing r-bioc-zlibbioc (1.36.0+dfsg-1) ... Removing zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Removing libc6-dev:amd64 (2.31-13+deb11u8) ... Removing libc-dev-bin (2.31-13+deb11u8) ... Removing libcrypt-dev:amd64 (1:4.4.18-4) ... Removing libitm1:amd64 (10.2.1-6) ... Removing liblsan0:amd64 (10.2.1-6) ... Removing libnsl-dev:amd64 (1.3.0-2) ... Removing libtirpc-dev:amd64 (1.3.1-1+deb11u1) ... Removing libtsan0:amd64 (10.2.1-6) ... Removing libubsan1:amd64 (10.2.1-6) ... Removing linux-libc-dev:amd64 (5.10.209-2) ... Removing r-bioc-iranges (2.24.1-1) ... Removing r-bioc-s4vectors (0.28.1-1) ... Removing r-bioc-biocgenerics (0.36.0-1) ... Removing r-bioc-genomeinfodbdata (1.2.4-1) ... Removing r-cran-bitops (1.0-6-5) ... Removing r-cran-crayon (1.4.0-1) ... Removing r-cran-formatr (1.7-2) ... Removing r-base-core (4.0.4-1) ... Removing ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.46.2-3) ... Removing libpangoft2-1.0-0:amd64 (1.46.2-3) ... Removing libpango-1.0-0:amd64 (1.46.2-3) ... Removing fontconfig (2.13.1-4.2) ... Removing libtk8.6:amd64 (8.6.11-2) ... Removing libxft2:amd64 (2.3.2-2) ... Removing libcairo2:amd64 (1.16.0-5) ... Removing libfontconfig1:amd64 (2.13.1-4.2) ... Removing fontconfig-config (2.13.1-4.2) ... Removing fonts-dejavu-core (2.37-2) ... Removing liblapack3:amd64 (3.9.0-3+deb11u1) ... Removing libblas3:amd64 (3.9.0-3+deb11u1) ... Removing libharfbuzz0b:amd64 (2.7.4-1) ... Removing libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Removing libcurl4:amd64 (7.74.0-1.3+deb11u11) ... Removing libbrotli1:amd64 (1.0.9-2+b2) ... Removing libxt6:amd64 (1:1.2.0-1) ... Removing libxss1:amd64 (1:1.2.3-1) ... Removing libxcb-shm0:amd64 (1.14-3) ... Removing libsm6:amd64 (2:1.2.3-1) ... Removing libice6:amd64 (2:1.0.10-1) ... Removing libthai0:amd64 (0.1.28-3) ... Removing libdatrie1:amd64 (0.2.13-1) ... Removing libtiff5:amd64 (4.2.0-1+deb11u5) ... Removing libdeflate0:amd64 (1.7-1) ... Removing libexpat1:amd64 (2.2.10-2+deb11u5) ... Removing libfribidi0:amd64 (1.0.8-2+deb11u1) ... Removing libgfortran5:amd64 (10.2.1-6) ... Removing libglib2.0-0:amd64 (2.66.8-1+deb11u1) ... Removing libgomp1:amd64 (10.2.1-6) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libicu67:amd64 (67.1-7) ... Removing libjbig0:amd64 (2.1-3.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.0.6-4) ... Removing libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Removing libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Removing libpaper-utils (1.1.28+b1) ... Removing libpaper1:amd64 (1.1.28+b1) ... Removing libpixman-1-0:amd64 (0.40.0-1.1~deb11u1) ... Removing libpng16-16:amd64 (1.6.37-3) ... Removing libpsl5:amd64 (0.21.0-1.2) ... Removing libquadmath0:amd64 (10.2.1-6) ... Removing libreadline8:amd64 (8.1-1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Removing libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Removing libssh2-1:amd64 (1.9.0-2) ... Removing libtcl8.6:amd64 (8.6.11+dfsg-1) ... Removing libthai-data (0.1.28-3) ... Removing libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Removing libxcb-render0:amd64 (1.14-3) ... Removing libxext6:amd64 (2:1.3.3-1.1) ... Removing libxrender1:amd64 (1:0.9.10-1) ... Removing openssl (1.1.1w-0+deb11u1) ... Removing readline-common (8.1-1) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.14) ... Removing unzip (6.0-26+deb11u1) ... Removing x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xdg-utils (1.1.3-4.1) ... Removing zip (3.0-12) ... Removing libx11-6:amd64 (2:1.7.2-1+deb11u2) ... Removing libxcb1:amd64 (1.14-3) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.3-1+deb11u1) ... Removing libmd0:amd64 (1.0.3-3) ... Removing libx11-data (2:1.7.2-1+deb11u2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Processing triggers for libc-bin (2.31-13+deb11u8) ... 0m57.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'libasan6:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libice6:amd64', 'libicu67:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'liblsan0:amd64', 'libmd0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libssh2-1:amd64', 'libstdc++-10-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libwebp6: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', 'libxt6:amd64', 'linux-libc-dev:amd64', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-s4vectors', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-crayon', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-rcurl', 'r-cran-snow', 'readline-common', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64', 'r-bioc-bitseq'] 0m57.8s INFO: Running scripts post_remove 0m57.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_remove_exceptions'] 0m57.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_remove_exceptions'] 0m57.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'libasan6:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libice6:amd64', 'libicu67:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'liblsan0:amd64', 'libmd0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libssh2-1:amd64', 'libstdc++-10-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libwebp6: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', 'libxt6:amd64', 'linux-libc-dev:amd64', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-s4vectors', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-crayon', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-rcurl', 'r-cran-snow', 'readline-common', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 0m58.8s DUMP: (Reading database ... 6721 files and directories currently installed.) Purging configuration files for ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for fontconfig (2.13.1-4.2) ... Purging configuration files for fontconfig-config (2.13.1-4.2) ... Purging configuration files for fonts-dejavu-core (2.37-2) ... dpkg: warning: while removing fonts-dejavu-core, directory '/usr/share/fonts/truetype/dejavu' not empty so not removed dpkg: warning: ignoring request to remove libasan6 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libboost-dev which isn't installed dpkg: warning: ignoring request to remove libboost1.74-dev which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcrypt-dev which isn't installed dpkg: warning: ignoring request to remove libcurl4 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgcc-10-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.66.8-1+deb11u1) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libicu67 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove libmd0 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl-dev which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpaper-utils which isn't installed Purging configuration files for libpaper1:amd64 (1.1.28+b1) ... dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 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 libsm6 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libstdc++-10-dev which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtirpc-dev which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove libwebp6 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 libxt6 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed Purging configuration files for openssl (1.1.1w-0+deb11u1) ... Purging configuration files for r-base-core (4.0.4-1) ... dpkg: warning: ignoring request to remove r-bioc-biocgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocparallel which isn't installed dpkg: warning: ignoring request to remove r-bioc-biostrings which isn't installed dpkg: warning: ignoring request to remove r-bioc-genomeinfodb which isn't installed dpkg: warning: ignoring request to remove r-bioc-genomeinfodbdata which isn't installed dpkg: warning: ignoring request to remove r-bioc-genomicranges which isn't installed dpkg: warning: ignoring request to remove r-bioc-iranges which isn't installed dpkg: warning: ignoring request to remove r-bioc-rhtslib which isn't installed dpkg: warning: ignoring request to remove r-bioc-rsamtools which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4vectors 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-bh which isn't installed dpkg: warning: ignoring request to remove r-cran-bitops which isn't installed dpkg: warning: ignoring request to remove r-cran-crayon which isn't installed dpkg: warning: ignoring request to remove r-cran-formatr which isn't installed dpkg: warning: ignoring request to remove r-cran-futile.logger which isn't installed dpkg: warning: ignoring request to remove r-cran-futile.options which isn't installed dpkg: warning: ignoring request to remove r-cran-lambda.r which isn't installed Purging configuration files for r-cran-rcurl (1.98-1.2-1+b1) ... dpkg: warning: ignoring request to remove r-cran-snow which isn't installed Purging configuration files for readline-common (8.1-1) ... dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for ucf (3.0043) ... Purging configuration files for unzip (6.0-26+deb11u1) ... Purging configuration files for x11-common (1:7.7+22) ... 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 0m58.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'libasan6:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.74-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libice6:amd64', 'libicu67:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'liblsan0:amd64', 'libmd0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libssh2-1:amd64', 'libstdc++-10-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libwebp6: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', 'libxt6:amd64', 'linux-libc-dev:amd64', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-biostrings', 'r-bioc-genomeinfodb', 'r-bioc-genomeinfodbdata', 'r-bioc-genomicranges', 'r-bioc-iranges', 'r-bioc-rhtslib', 'r-bioc-rsamtools', 'r-bioc-s4vectors', 'r-bioc-xvector', 'r-bioc-zlibbioc', 'r-cran-bh', 'r-cran-bitops', 'r-cran-crayon', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-rcurl', 'r-cran-snow', 'readline-common', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'zlib1g-dev:amd64'] 0m58.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--purge', 'r-bioc-bitseq'] 0m58.8s DUMP: dpkg: warning: ignoring request to remove r-bioc-bitseq which isn't installed 0m58.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--purge', 'r-bioc-bitseq'] 0m58.8s INFO: Running scripts post_purge 0m58.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_purge_exceptions'] 0m58.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_purge_exceptions'] 0m58.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--purge', '--pending'] 0m58.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--purge', '--pending'] 0m58.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--remove', '--pending'] 0m58.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg', '--remove', '--pending'] 0m58.8s INFO: Running scripts post_test 0m58.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_test_exceptions'] 0m58.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'tmp/scripts/post_test_exceptions'] 0m58.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m59.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 0m59.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg-divert', '--list'] 0m59.2s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m59.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'dpkg-divert', '--list'] 0m59.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'clean'] 0m59.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpchag1c3l', 'apt-get', 'clean'] 0m59.2s DEBUG: Recording chroot state 0m59.8s INFO: Warning: Package purging left files on system: /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: fonts-dejavu-core /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/dejavu/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/dejavu/.uuid not owned 1m0.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/shm'] 1m0.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/shm'] 1m0.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/console'] 1m0.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/console'] 1m0.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/ptmx'] 1m0.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/ptmx'] 1m0.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/pts'] 1m0.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/dev/pts'] 1m0.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/proc'] 1m0.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpchag1c3l/proc'] 1m0.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 1m0.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpchag1c3l'] 1m0.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpchag1c3l 1m0.5s INFO: PASS: Upgrading between Debian distributions. 1m0.5s INFO: PASS: All tests. 1m0.5s INFO: piuparts run ends. ret=0 End: 2024-02-23 09:46:23 GMT