Start: 2020-12-03 21:19:14 GMT [testing] Package: grinder Version: 0.5.4-5 Installed-Size: 251 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl, libbio-perl-perl, libgetopt-euclid-perl, libmath-random-mt-perl Description: Versatile omics shotgun and amplicon sequencing read simulator Homepage: https://sourceforge.net/projects/biogrinder/ Description-md5: 83e4b80a1bd0288759d7cb1739440cc0 Section: science Priority: optional Filename: pool/main/g/grinder/grinder_0.5.4-5_all.deb Size: 85140 MD5sum: 0fa30e7b58a91fe6faff5367b911c099 SHA256: 97ff3f4f72c8ef562f9182b012867f776c87e771f8f6684f9b4f6252da0e4054 [sid] Package: grinder Version: 0.5.4-6 Installed-Size: 251 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, libbio-perl-perl, libgetopt-euclid-perl, libmath-random-mt-perl Description: Versatile omics shotgun and amplicon sequencing read simulator Homepage: https://sourceforge.net/projects/biogrinder/ Description-md5: 83e4b80a1bd0288759d7cb1739440cc0 Section: science Priority: optional Filename: pool/main/g/grinder/grinder_0.5.4-6_all.deb Size: 85284 MD5sum: c8e9e876bbe2c7bd2fe929fc9cb21887 SHA256: 86de2ec61f32b1c0f5fe1aeb505dc60bdd696b72cb79488bbfc99d5cb090d3bc Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt grinder=0.5.4-6 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 1.1.2~202004292038~1.1.1-19-g418151e2 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt grinder=0.5.4-6 0m0.0s INFO: Running on: Linux piu-slave-conova-01 4.19.0-12-amd64 #1 SMP Debian 4.19.152-1 (2020-10-18) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpbfrrwnsj 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpbfrrwnsj 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz'] 0m1.7s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz'] 0m1.7s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/proc'] 0m1.7s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/proc'] 0m1.7s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/pts'] 0m1.7s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/pts'] 0m1.7s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/ptmx'] 0m1.7s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/ptmx'] 0m1.7s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/console'] 0m1.7s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/console'] 0m1.7s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/shm'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/shm'] 0m1.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m1.8s DEBUG: Created policy-rc.d and chmodded it. 0m1.8s DEBUG: Created resolv.conf. 0m1.8s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpbfrrwnsj/tmp/scripts/ 0m1.8s INFO: Running scripts post_chroot_unpack 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'update'] 0m3.7s DUMP: Get:1 http://deb.debian.org/debian bullseye InRelease [120 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 Packages [7908 kB] Fetched 8028 kB in 1s (5589 kB/s) Reading package lists... 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'update'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-yf', 'dist-upgrade'] 0m4.9s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: apt libapt-pkg6.0 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2463 kB of archives. After this operation, 12.3 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 libapt-pkg6.0 amd64 2.1.12 [995 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 apt amd64 2.1.12 [1468 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2463 kB in 0s (12.6 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 ... 6675 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.1.12_amd64.deb ... Unpacking libapt-pkg6.0:amd64 (2.1.12) over (2.1.11) ... Setting up libapt-pkg6.0:amd64 (2.1.12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../archives/apt_2.1.12_amd64.deb ... Unpacking apt (2.1.12) over (2.1.11) ... Setting up apt (2.1.12) ... Processing triggers for libc-bin (2.31-4) ... 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-yf', 'dist-upgrade'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.9s DUMP: 023bd7894dede5fe958061a30d0c797e - 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.9s INFO: Running scripts post_setup 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_dummy_users'] 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_dummy_users'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_forbid_home'] 0m7.4s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_forbid_home'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_force-unsafe-io'] 0m7.4s 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' 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_force-unsafe-io'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_minimize'] 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_minimize'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_squeeze-backports'] 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_squeeze-backports'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_zz_backports'] 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_setup_zz_backports'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.5s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.1.12 install ok installed base-files base-files 11 install ok installed base-passwd base-passwd 3.5.48 install ok installed bash bash 5.1~rc3-1 install ok installed bsdutils bsdutils 1:2.36.1-1 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-2 install ok installed debconf debconf 1.5.74 install ok installed debian-archive-keyring debian-archive-keyring 2019.1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.20.5 install ok installed e2fsprogs e2fsprogs 1.45.6-1 install ok installed findutils findutils 4.7.0+git20201010-2 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.0-19 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-19 install ok installed gpgv gpgv 2.2.20-1 install ok installed grep grep 3.6-1 install ok installed gzip gzip 1.10-2 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.59 install ok installed libacl1:amd64 libacl1 2.2.53-8 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.1.12 install ok installed libattr1:amd64 libattr1 1:2.4.48-5 install ok installed libaudit-common libaudit-common 1:2.8.5-3.1 install ok installed libaudit1:amd64 libaudit1 1:2.8.5-3.1 install ok installed libblkid1:amd64 libblkid1 2.36.1-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-4 install ok installed libc6:amd64 libc6 2.31-4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2 install ok installed libcom-err2:amd64 libcom-err2 1.45.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.17-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.6 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.255 install ok installed libext2fs2:amd64 libext2fs2 1.45.6-1 install ok installed libffi7:amd64 libffi7 3.3-5 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.0-19 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-2 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1 install ok installed libgnutls30:amd64 libgnutls30 3.6.15-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-4 install ok installed libhogweed6:amd64 libhogweed6 3.6-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-4 install ok installed liblz4-1:amd64 liblz4-1 1.9.2-2 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+b1 install ok installed libmount1:amd64 libmount1 2.36.1-1 install ok installed libnettle8:amd64 libnettle8 3.6-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnss-nis:amd64 libnss-nis 3.1-4 install ok installed libnss-nisplus:amd64 libnss-nisplus 1.3-4 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.21-2 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.34-7 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.0-3 install ok installed libselinux1:amd64 libselinux1 3.1-2+b1 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b1 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-1 install ok installed libss2:amd64 libss2 1.45.6-1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1h-1 install ok installed libstdc++6:amd64 libstdc++6 10.2.0-19 install ok installed libsystemd0:amd64 libsystemd0 246.6-4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.2+20200918-1 install ok installed libtirpc-common libtirpc-common 1.2.6-3 install ok installed libtirpc3:amd64 libtirpc3 1.2.6-3 install ok installed libudev1:amd64 libudev1 246.6-4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-1 install ok installed libzstd1:amd64 libzstd1 1.4.5+dfsg-4 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.45.6-1 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 2.36.1-1 install ok installed ncurses-base ncurses-base 6.2+20200918-1 install ok installed ncurses-bin ncurses-bin 6.2+20200918-1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.0-5 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-5 install ok installed tar tar 1.32+dfsg-1 install ok installed tzdata tzdata 2020d-1 install ok installed util-linux util-linux 2.36.1-1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.5s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m7.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m7.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m7.8s INFO: Running scripts is_testable 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/is_testable_uninstallable'] 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/is_testable_uninstallable'] 0m7.8s INFO: Running scripts pre_test 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_test_exceptions'] 0m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_test_exceptions'] 0m7.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_test_root_password'] 0m7.9s DUMP: New password: Retype new password: passwd: password updated successfully 0m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_test_root_password'] 0m7.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'show', '--no-all-versions', 'grinder'] 0m8.0s DUMP: Package: grinder Version: 0.5.4-5 Installed-Size: 251 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl, libbio-perl-perl, libgetopt-euclid-perl, libmath-random-mt-perl Description-en: Versatile omics shotgun and amplicon sequencing read simulator Grinder is a versatile program to create random shotgun and amplicon sequence libraries based on DNA, RNA or proteic reference sequences provided in a FASTA file. . Grinder can produce genomic, metagenomic, transcriptomic, metatranscriptomic, proteomic, metaproteomic shotgun and amplicon datasets from current sequencing technologies such as Sanger, 454, Illumina. These simulated datasets can be used to test the accuracy of bioinformatic tools under specific hypothesis, e.g. with or without sequencing errors, or with low or high community diversity. Grinder may also be used to help decide between alternative sequencing methods for a sequence-based project, e.g. should the library be paired-end or not, how many reads should be sequenced. Description-md5: 83e4b80a1bd0288759d7cb1739440cc0 Homepage: https://sourceforge.net/projects/biogrinder/ Section: science Priority: optional Filename: pool/main/g/grinder/grinder_0.5.4-5_all.deb Size: 85140 MD5sum: 0fa30e7b58a91fe6faff5367b911c099 SHA256: 97ff3f4f72c8ef562f9182b012867f776c87e771f8f6684f9b4f6252da0e4054 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'show', '--no-all-versions', 'grinder'] 0m8.0s INFO: apt-cache knows about the following packages: grinder 0m8.0s INFO: Running scripts pre_install 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_database-server'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_database-server'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_exceptions'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_exceptions'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_extras'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_extras'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy'] 0m8.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release o=Debian,a=testing,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy', 'grinder'] 0m8.1s DUMP: grinder: Installed: (none) Candidate: 0.5.4-5 Version table: 0.5.4-5 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy', 'grinder'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-y', 'install', 'grinder'] 0m10.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libbio-perl-perl libdata-stag-perl libgdbm-compat4 libgdbm6 libgetopt-euclid-perl libio-string-perl libmath-random-mt-perl libperl5.32 libpod-parser-perl perl perl-modules-5.32 Suggested packages: bioperl libxml-sax-expatxs-perl gdbm-l10n sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl Recommended packages: bioperl-run | libbio-perl-run-perl libace-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl liblist-moreutils-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-libxml-perl libwww-perl perl-tk libgd-gd2-perl | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl libxml-perl netbase The following NEW packages will be installed: grinder libbio-perl-perl libdata-stag-perl libgdbm-compat4 libgdbm6 libgetopt-euclid-perl libio-string-perl libmath-random-mt-perl libperl5.32 libpod-parser-perl perl perl-modules-5.32 0 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. Need to get 10.7 MB of archives. After this operation, 57.5 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 perl-modules-5.32 all 5.32.0-5 [2821 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libgdbm6 amd64 1.18.1-5.1 [64.4 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 libgdbm-compat4 amd64 1.18.1-5.1 [44.4 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 libperl5.32 amd64 5.32.0-5 [4119 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 perl amd64 5.32.0-5 [293 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 libdata-stag-perl all 0.14-2 [448 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 libbio-perl-perl all 1.7.7-2 [2607 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 libpod-parser-perl all 1.63-2 [96.1 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 libgetopt-euclid-perl all 0.4.5-3 [47.7 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 libmath-random-mt-perl amd64 1.17-1+b7 [15.2 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 grinder all 0.5.4-5 [85.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 10.7 MB in 0s (62.8 MB/s) Selecting previously unselected package perl-modules-5.32. (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 ... 6683 files and directories currently installed.) Preparing to unpack .../00-perl-modules-5.32_5.32.0-5_all.deb ... Unpacking perl-modules-5.32 (5.32.0-5) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../01-libgdbm6_1.18.1-5.1_amd64.deb ... Unpacking libgdbm6:amd64 (1.18.1-5.1) ... Selecting previously unselected package libgdbm-compat4:amd64. Preparing to unpack .../02-libgdbm-compat4_1.18.1-5.1_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.18.1-5.1) ... Selecting previously unselected package libperl5.32:amd64. Preparing to unpack .../03-libperl5.32_5.32.0-5_amd64.deb ... Unpacking libperl5.32:amd64 (5.32.0-5) ... Selecting previously unselected package perl. Preparing to unpack .../04-perl_5.32.0-5_amd64.deb ... Unpacking perl (5.32.0-5) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../05-libio-string-perl_1.08-3_all.deb ... Unpacking libio-string-perl (1.08-3) ... Selecting previously unselected package libdata-stag-perl. Preparing to unpack .../06-libdata-stag-perl_0.14-2_all.deb ... Unpacking libdata-stag-perl (0.14-2) ... Selecting previously unselected package libbio-perl-perl. Preparing to unpack .../07-libbio-perl-perl_1.7.7-2_all.deb ... Unpacking libbio-perl-perl (1.7.7-2) ... Selecting previously unselected package libpod-parser-perl. Preparing to unpack .../08-libpod-parser-perl_1.63-2_all.deb ... Adding 'diversion of /usr/bin/podselect to /usr/bin/podselect.bundled by libpod-parser-perl' Adding 'diversion of /usr/share/man/man1/podselect.1.gz to /usr/share/man/man1/podselect.bundled.1.gz by libpod-parser-perl' Unpacking libpod-parser-perl (1.63-2) ... Selecting previously unselected package libgetopt-euclid-perl. Preparing to unpack .../09-libgetopt-euclid-perl_0.4.5-3_all.deb ... Unpacking libgetopt-euclid-perl (0.4.5-3) ... Selecting previously unselected package libmath-random-mt-perl. Preparing to unpack .../10-libmath-random-mt-perl_1.17-1+b7_amd64.deb ... Unpacking libmath-random-mt-perl (1.17-1+b7) ... Selecting previously unselected package grinder. Preparing to unpack .../11-grinder_0.5.4-5_all.deb ... Unpacking grinder (0.5.4-5) ... Setting up perl-modules-5.32 (5.32.0-5) ... Setting up libgdbm6:amd64 (1.18.1-5.1) ... Setting up libgdbm-compat4:amd64 (1.18.1-5.1) ... Setting up libperl5.32:amd64 (5.32.0-5) ... Setting up perl (5.32.0-5) ... Setting up libpod-parser-perl (1.63-2) ... Setting up libgetopt-euclid-perl (0.4.5-3) ... Setting up libmath-random-mt-perl (1.17-1+b7) ... Setting up libio-string-perl (1.08-3) ... Setting up libdata-stag-perl (0.14-2) ... Setting up libbio-perl-perl (1.7.7-2) ... Setting up grinder (0.5.4-5) ... Processing triggers for libc-bin (2.31-4) ... 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-y', 'install', 'grinder'] 0m10.7s INFO: Running scripts post_install 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_install_exceptions'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_install_exceptions'] 0m10.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m11.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m11.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpbfrrwnsj to sid 0m11.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m11.2s INFO: Running scripts pre_distupgrade 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_exceptions'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_exceptions'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'update'] 0m15.3s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [150 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [8528 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6417 kB] Fetched 15.1 MB in 3s (4576 kB/s) Reading package lists... 0m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'update'] 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-yf', 'dist-upgrade'] 0m18.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: bsdutils gcc-10-base grinder libblkid1 libc-bin libc6 libcap-ng0 libgcc-s1 libmount1 libsmartcols1 libstdc++6 libsystemd0 libtinfo6 libudev1 libuuid1 mount ncurses-base ncurses-bin util-linux 19 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 8143 kB of archives. After this operation, 164 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.36.1-2 [148 kB] Get:2 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.2+20201114-1 [428 kB] Get:3 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.36.1-2 [1139 kB] Get:4 http://deb.debian.org/debian sid/main amd64 gcc-10-base amd64 10.2.0-21 [200 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 10.2.0-21 [41.4 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 10.2.0-21 [492 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.31-5 [2806 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.31-5 [811 kB] Get:9 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.2+20201114-1 [271 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 247.1-2 [374 kB] Get:11 http://deb.debian.org/debian sid/main amd64 mount amd64 2.36.1-2 [184 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.36.1-2 [192 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libcap-ng0 amd64 0.7.9-2.2+b1 [14.8 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.36.1-2 [210 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.36.1-2 [156 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.2+20201114-1 [341 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 247.1-2 [165 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.36.1-2 [82.7 kB] Get:19 http://deb.debian.org/debian sid/main amd64 grinder all 0.5.4-6 [85.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 8143 kB in 0s (29.5 MB/s) (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9896 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-2.2+b1_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-2.2+b1) over (0.7.9-2.2) ... Setting up libcap-ng0:amd64 (0.7.9-2.2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9897 files and directories currently installed.) Preparing to unpack .../libmount1_2.36.1-2_amd64.deb ... Unpacking libmount1:amd64 (2.36.1-2) over (2.36.1-1) ... Setting up libmount1:amd64 (2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9897 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.36.1-2_amd64.deb ... Unpacking libsmartcols1:amd64 (2.36.1-2) over (2.36.1-1) ... Setting up libsmartcols1:amd64 (2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9897 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.2+20201114-1_amd64.deb ... Unpacking libtinfo6:amd64 (6.2+20201114-1) over (6.2+20200918-1) ... Setting up libtinfo6:amd64 (6.2+20201114-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9897 files and directories currently installed.) Preparing to unpack .../libudev1_247.1-2_amd64.deb ... Unpacking libudev1:amd64 (247.1-2) over (246.6-4) ... Setting up libudev1:amd64 (247.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9897 files and directories currently installed.) Preparing to unpack .../libuuid1_2.36.1-2_amd64.deb ... Unpacking libuuid1:amd64 (2.36.1-2) over (2.36.1-1) ... Setting up libuuid1:amd64 (2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9897 files and directories currently installed.) Preparing to unpack .../grinder_0.5.4-6_all.deb ... Unpacking grinder (0.5.4-6) over (0.5.4-5) ... Setting up grinder (0.5.4-6) ... Setting up mount (2.36.1-2) ... Processing triggers for libc-bin (2.31-5) ... 0m18.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-yf', 'dist-upgrade'] 0m18.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m18.9s DUMP: c59ce7b6dd4dd37e74c00d5c2006150d - 0m18.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m18.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'show', '--no-all-versions', 'grinder'] 0m19.1s DUMP: Package: grinder Version: 0.5.4-6 Installed-Size: 251 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, libbio-perl-perl, libgetopt-euclid-perl, libmath-random-mt-perl Description-en: Versatile omics shotgun and amplicon sequencing read simulator Grinder is a versatile program to create random shotgun and amplicon sequence libraries based on DNA, RNA or proteic reference sequences provided in a FASTA file. . Grinder can produce genomic, metagenomic, transcriptomic, metatranscriptomic, proteomic, metaproteomic shotgun and amplicon datasets from current sequencing technologies such as Sanger, 454, Illumina. These simulated datasets can be used to test the accuracy of bioinformatic tools under specific hypothesis, e.g. with or without sequencing errors, or with low or high community diversity. Grinder may also be used to help decide between alternative sequencing methods for a sequence-based project, e.g. should the library be paired-end or not, how many reads should be sequenced. Description-md5: 83e4b80a1bd0288759d7cb1739440cc0 Homepage: https://sourceforge.net/projects/biogrinder/ Section: science Priority: optional Filename: pool/main/g/grinder/grinder_0.5.4-6_all.deb Size: 85284 MD5sum: c8e9e876bbe2c7bd2fe929fc9cb21887 SHA256: 86de2ec61f32b1c0f5fe1aeb505dc60bdd696b72cb79488bbfc99d5cb090d3bc 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'show', '--no-all-versions', 'grinder'] 0m19.1s INFO: apt-cache knows about the following packages: grinder 0m19.1s INFO: Running scripts pre_install 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_database-server'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_database-server'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_exceptions'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_exceptions'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_extras'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_extras'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy'] 0m19.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m19.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy'] 0m19.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy', 'grinder'] 0m19.2s DUMP: grinder: Installed: 0.5.4-6 Candidate: 0.5.4-6 Version table: *** 0.5.4-6 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m19.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy', 'grinder'] 0m19.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-y', 'install', 'grinder'] 0m19.5s DUMP: Reading package lists... Building dependency tree... Reading state information... grinder is already the newest version (0.5.4-6). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-y', 'install', 'grinder'] 0m19.5s INFO: Running scripts post_install 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_install_exceptions'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_install_exceptions'] 0m19.5s INFO: Running scripts post_distupgrade 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_exceptions'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_exceptions'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_zz_backports'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_distupgrade_zz_backports'] 0m19.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m19.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m19.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m20.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m20.4s INFO: Running scripts pre_install 0m20.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_database-server'] 0m20.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_database-server'] 0m20.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_exceptions'] 0m20.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_exceptions'] 0m20.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_extras'] 0m20.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_extras'] 0m20.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy'] 0m20.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy', 'grinder'] 0m20.5s DUMP: grinder: Installed: 0.5.4-6 Candidate: 0.5.4-6 Version table: *** 0.5.4-6 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-cache', 'policy', 'grinder'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-y', 'install', 'grinder=0.5.4-6'] 0m20.8s DUMP: Reading package lists... Building dependency tree... Reading state information... grinder is already the newest version (0.5.4-6). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m20.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', '-y', 'install', 'grinder=0.5.4-6'] 0m20.8s INFO: Running scripts post_install 0m20.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_install_exceptions'] 0m20.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_install_exceptions'] 0m20.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m21.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m21.8s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', '-ac', '--ignore-obsolete'] 0m22.7s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', '-ac', '--ignore-obsolete'] 0m22.7s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m22.7s DUMP: 0.15.2 0m22.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m22.7s INFO: Running adequate version 0.15.2 now. 0m22.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'grinder'] 0m22.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'grinder'] 0m22.8s INFO: Running scripts pre_remove 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_exceptions'] 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/pre_remove_exceptions'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.9s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.1.12 install ok installed base-files base-files 11 install ok installed base-passwd base-passwd 3.5.48 install ok installed bash bash 5.1~rc3-1 install ok installed bsdutils bsdutils 1:2.36.1-2 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-2 install ok installed debconf debconf 1.5.74 install ok installed debian-archive-keyring debian-archive-keyring 2019.1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.20.5 install ok installed e2fsprogs e2fsprogs 1.45.6-1 install ok installed findutils findutils 4.7.0+git20201010-2 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.0-21 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-19 install ok installed gpgv gpgv 2.2.20-1 install ok installed grep grep 3.6-1 install ok installed grinder grinder 0.5.4-6 install ok installed gzip gzip 1.10-2 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.59 install ok installed libacl1:amd64 libacl1 2.2.53-8 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.1.12 install ok installed libattr1:amd64 libattr1 1:2.4.48-5 install ok installed libaudit-common libaudit-common 1:2.8.5-3.1 install ok installed libaudit1:amd64 libaudit1 1:2.8.5-3.1 install ok installed libbio-perl-perl libbio-perl-perl 1.7.7-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-5 install ok installed libc6:amd64 libc6 2.31-5 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.45.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.17-1 install ok installed libdata-stag-perl libdata-stag-perl 0.14-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.6 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.255 install ok installed libext2fs2:amd64 libext2fs2 1.45.6-1 install ok installed libffi7:amd64 libffi7 3.3-5 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.0-21 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-2 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.18.1-5.1 install ok installed libgdbm6:amd64 libgdbm6 1.18.1-5.1 install ok installed libgetopt-euclid-perl libgetopt-euclid-perl 0.4.5-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1 install ok installed libgnutls30:amd64 libgnutls30 3.6.15-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-4 install ok installed libhogweed6:amd64 libhogweed6 3.6-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-4 install ok installed libio-string-perl libio-string-perl 1.08-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-4 install ok installed liblz4-1:amd64 liblz4-1 1.9.2-2 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+b1 install ok installed libmath-random-mt-perl libmath-random-mt-perl 1.17-1+b7 install ok installed libmount1:amd64 libmount1 2.36.1-2 install ok installed libnettle8:amd64 libnettle8 3.6-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnss-nis:amd64 libnss-nis 3.1-4 install ok installed libnss-nisplus:amd64 libnss-nisplus 1.3-4 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.21-2 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.34-7 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libperl5.32:amd64 libperl5.32 5.32.0-5 install ok installed libpod-parser-perl libpod-parser-perl 1.63-2 install ok installed libseccomp2:amd64 libseccomp2 2.5.0-3 install ok installed libselinux1:amd64 libselinux1 3.1-2+b1 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b1 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-2 install ok installed libss2:amd64 libss2 1.45.6-1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1h-1 install ok installed libstdc++6:amd64 libstdc++6 10.2.0-21 install ok installed libsystemd0:amd64 libsystemd0 247.1-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-1 install ok installed libtirpc-common libtirpc-common 1.2.6-3 install ok installed libtirpc3:amd64 libtirpc3 1.2.6-3 install ok installed libudev1:amd64 libudev1 247.1-2 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-2 install ok installed libzstd1:amd64 libzstd1 1.4.5+dfsg-4 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.45.6-1 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 2.36.1-2 install ok installed ncurses-base ncurses-base 6.2+20201114-1 install ok installed ncurses-bin ncurses-bin 6.2+20201114-1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl perl 5.32.0-5 install ok installed perl-base perl-base 5.32.0-5 install ok installed perl-modules-5.32 perl-modules-5.32 5.32.0-5 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-5 install ok installed tar tar 1.32+dfsg-1 install ok installed tzdata tzdata 2020d-1 install ok installed util-linux util-linux 2.36.1-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'remove', 'libbio-perl-perl', 'libdata-stag-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgetopt-euclid-perl', 'libio-string-perl', 'libmath-random-mt-perl', 'libperl5.32:amd64', 'libpod-parser-perl', 'perl', 'perl-modules-5.32', 'grinder'] 0m24.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: grinder libbio-perl-perl libdata-stag-perl libgdbm-compat4 libgdbm6 libgetopt-euclid-perl libio-string-perl libmath-random-mt-perl libperl5.32 libpod-parser-perl perl perl-modules-5.32 0 upgraded, 0 newly installed, 12 to remove and 0 not upgraded. After this operation, 57.5 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 ... 9897 files and directories currently installed.) Removing grinder (0.5.4-6) ... Removing libbio-perl-perl (1.7.7-2) ... Removing libdata-stag-perl (0.14-2) ... Removing libmath-random-mt-perl (1.17-1+b7) ... Removing libgetopt-euclid-perl (0.4.5-3) ... Removing libpod-parser-perl (1.63-2) ... Removing 'diversion of /usr/bin/podselect to /usr/bin/podselect.bundled by libpod-parser-perl' Removing 'diversion of /usr/share/man/man1/podselect.1.gz to /usr/share/man/man1/podselect.bundled.1.gz by libpod-parser-perl' Removing libio-string-perl (1.08-3) ... Removing perl (5.32.0-5) ... Removing libperl5.32:amd64 (5.32.0-5) ... Removing libgdbm-compat4:amd64 (1.18.1-5.1) ... Removing libgdbm6:amd64 (1.18.1-5.1) ... Removing perl-modules-5.32 (5.32.0-5) ... Processing triggers for libc-bin (2.31-5) ... 0m24.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'remove', 'libbio-perl-perl', 'libdata-stag-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgetopt-euclid-perl', 'libio-string-perl', 'libmath-random-mt-perl', 'libperl5.32:amd64', 'libpod-parser-perl', 'perl', 'perl-modules-5.32', 'grinder'] 0m24.8s INFO: Running scripts post_remove 0m24.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_remove_exceptions'] 0m24.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_remove_exceptions'] 0m24.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--purge', 'libbio-perl-perl', 'libdata-stag-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgetopt-euclid-perl', 'libio-string-perl', 'libmath-random-mt-perl', 'libperl5.32:amd64', 'libpod-parser-perl', 'perl', 'perl-modules-5.32'] 0m24.8s DUMP: dpkg: warning: ignoring request to remove libbio-perl-perl which isn't installed dpkg: warning: ignoring request to remove libdata-stag-perl which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgetopt-euclid-perl which isn't installed dpkg: warning: ignoring request to remove libio-string-perl which isn't installed dpkg: warning: ignoring request to remove libmath-random-mt-perl which isn't installed dpkg: warning: ignoring request to remove libperl5.32 which isn't installed (Reading database ... 6687 files and directories currently installed.) Purging configuration files for libpod-parser-perl (1.63-2) ... Purging configuration files for perl (5.32.0-5) ... dpkg: warning: ignoring request to remove perl-modules-5.32 which isn't installed 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--purge', 'libbio-perl-perl', 'libdata-stag-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgetopt-euclid-perl', 'libio-string-perl', 'libmath-random-mt-perl', 'libperl5.32:amd64', 'libpod-parser-perl', 'perl', 'perl-modules-5.32'] 0m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--purge', 'grinder'] 0m24.9s DUMP: dpkg: warning: ignoring request to remove grinder which isn't installed 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--purge', 'grinder'] 0m24.9s INFO: Running scripts post_purge 0m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_purge_exceptions'] 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_purge_exceptions'] 0m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--purge', '--pending'] 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--purge', '--pending'] 0m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--remove', '--pending'] 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg', '--remove', '--pending'] 0m24.9s INFO: Running scripts post_test 0m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_test_exceptions'] 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'tmp/scripts/post_test_exceptions'] 0m24.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m25.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m25.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg-divert', '--list'] 0m25.4s 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 0m25.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'dpkg-divert', '--list'] 0m25.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'clean'] 0m25.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj', 'apt-get', 'clean'] 0m25.4s DEBUG: Recording chroot state 0m26.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/shm'] 0m26.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/shm'] 0m26.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/console'] 0m26.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/console'] 0m26.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/ptmx'] 0m26.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/ptmx'] 0m26.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/pts'] 0m26.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/dev/pts'] 0m26.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/proc'] 0m26.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj/proc'] 0m26.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m26.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpbfrrwnsj'] 0m26.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpbfrrwnsj 0m26.5s INFO: PASS: Upgrading between Debian distributions. 0m26.5s INFO: PASS: All tests. 0m26.5s INFO: piuparts run ends. ret=0 End: 2020-12-03 21:19:40 GMT