Start: 2023-03-20 08:02:46 GMT [stretch] Package: med-cloud Source: debian-med Version: 3.0.1 Installed-Size: 35 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 3.0.1), med-config (= 3.0.1) Recommends: abyss, acedb-other, aevol, alien-hunter, altree, amap-align, ampliconnoise, anfo, aragorn, arden, autodock, autodock-vina, autogrid, bamtools, bedtools, biomaj, bioperl, bioperl-run, biosquid, blast2, bowtie, bowtie2, boxshade, bwa, cain, cassiopee, cd-hit, cdbfasta, circos, clearcut, clonalframe, clustalo, clustalw, concavity, conservation-code, datamash, dialign, dialign-tx, discosnp, disulfinder, dnaclust, dssp, embassy-domainatrix, embassy-domalign, embassy-domsearch, emboss, exonerate, fastdnaml, fastlink, fastqc, fasttree, fastx-toolkit, filo, fitgcp, flexbar, freecontact, gasic, genometools, gff2aplot, gff2ps, giira, glam2, grinder, gromacs, hhsuite, hmmer, idba, infernal, jellyfish, kalign, kissplice, last-align, loki, macs, mafft, mapsembler2, maq, melting, minia, mipe, mira-assembler, mlv-smile, mothur, mrbayes, mummer, muscle, mustang, ncbi-epcr, ncbi-tools-bin, ncoils, neobio, paraclu, parsinsert, pdb2pqr, perm, phyml, phyutility, picard-tools, plink, poa, prank, prime-phylo, primer3, probabel, probcons, proda, prodigal, pynast, python-biopython, python-cogent, python3-biopython, r-bioc-edger, r-bioc-hilbertvis, r-cran-pvclust, r-cran-qtl, r-cran-vegan, r-other-mott-happy.hbrem, raster3d, readseq, rnahybrid, rtax, samtools, seqan-apps, sibsim4, sigma-align, sim4, smalt, snap, soapdenovo, soapdenovo2, squizz, sra-toolkit, ssake, staden-io-lib-utils, t-coffee, tabix, theseus, tigr-glimmer, tophat, tree-puzzle | tree-ppuzzle, vcftools, velvet, wise, zalign Suggests: bagpipe, cufflinks, embassy-phylip, gmap, qiime, r-other-valdar-bagphenotype.library Description: Debian Med bioinformatics applications usable in cloud computing Description-md5: 8580600ffc7b786c93529ecf82882c1a Tag: field::biology:molecular, role::metapackage Section: misc Priority: extra Filename: pool/main/d/debian-med/med-cloud_3.0.1_all.deb Size: 15550 MD5sum: c030c33cd6cd52d6080fc4bf9eb979f1 SHA256: d6cd199748d3199304097d080797ccbab08fec6b411431003ce6ca55cd7f6cd8 [stretch-lts] Package: med-cloud Source: debian-med Version: 3.0.1 Installed-Size: 35 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 3.0.1), med-config (= 3.0.1) Recommends: abyss, acedb-other, aevol, alien-hunter, altree, amap-align, ampliconnoise, anfo, aragorn, arden, autodock, autodock-vina, autogrid, bamtools, bedtools, biomaj, bioperl, bioperl-run, biosquid, blast2, bowtie, bowtie2, boxshade, bwa, cain, cassiopee, cd-hit, cdbfasta, circos, clearcut, clonalframe, clustalo, clustalw, concavity, conservation-code, datamash, dialign, dialign-tx, discosnp, disulfinder, dnaclust, dssp, embassy-domainatrix, embassy-domalign, embassy-domsearch, emboss, exonerate, fastdnaml, fastlink, fastqc, fasttree, fastx-toolkit, filo, fitgcp, flexbar, freecontact, gasic, genometools, gff2aplot, gff2ps, giira, glam2, grinder, gromacs, hhsuite, hmmer, idba, infernal, jellyfish, kalign, kissplice, last-align, loki, macs, mafft, mapsembler2, maq, melting, minia, mipe, mira-assembler, mlv-smile, mothur, mrbayes, mummer, muscle, mustang, ncbi-epcr, ncbi-tools-bin, ncoils, neobio, paraclu, parsinsert, pdb2pqr, perm, phyml, phyutility, picard-tools, plink, poa, prank, prime-phylo, primer3, probabel, probcons, proda, prodigal, pynast, python-biopython, python-cogent, python3-biopython, r-bioc-edger, r-bioc-hilbertvis, r-cran-pvclust, r-cran-qtl, r-cran-vegan, r-other-mott-happy.hbrem, raster3d, readseq, rnahybrid, rtax, samtools, seqan-apps, sibsim4, sigma-align, sim4, smalt, snap, soapdenovo, soapdenovo2, squizz, sra-toolkit, ssake, staden-io-lib-utils, t-coffee, tabix, theseus, tigr-glimmer, tophat, tree-puzzle | tree-ppuzzle, vcftools, velvet, wise, zalign Suggests: bagpipe, cufflinks, embassy-phylip, gmap, qiime, r-other-valdar-bagphenotype.library Description: Debian Med bioinformatics applications usable in cloud computing Description-md5: 8580600ffc7b786c93529ecf82882c1a Tag: field::biology:molecular, role::metapackage Section: misc Priority: extra Filename: pool/main/d/debian-med/med-cloud_3.0.1_all.deb Size: 15550 MD5sum: c030c33cd6cd52d6080fc4bf9eb979f1 SHA256: d6cd199748d3199304097d080797ccbab08fec6b411431003ce6ca55cd7f6cd8 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 --skip-logrotatefiles-test --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d stretch-lts -B /srv/piuparts.debian.org/slave/refchroot/stretch2next/reference-chroot-metadata.dat --apt med-cloud=3.0.1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 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 --skip-logrotatefiles-test --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d stretch-lts -B /srv/piuparts.debian.org/slave/refchroot/stretch2next/reference-chroot-metadata.dat --apt med-cloud=3.0.1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp_rmbtt74 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp_rmbtt74 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/proc'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/proc'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/pts'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/pts'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/ptmx'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/ptmx'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/console'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/console'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/shm'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/shm'] 0m1.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m1.4s DEBUG: Created policy-rc.d and chmodded it. 0m1.4s DEBUG: Created resolv.conf. 0m1.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp_rmbtt74/tmp/scripts/ 0m1.4s INFO: Running scripts post_chroot_unpack 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'update'] 0m2.1s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'update'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-yf', 'dist-upgrade'] 0m2.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-yf', 'dist-upgrade'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s INFO: Running scripts post_setup 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_dummy_users'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_dummy_users'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_forbid_home'] 0m3.2s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_forbid_home'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.2s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_minimize'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_minimize'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_zz_backports'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_setup_zz_backports'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.3s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.10 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.25 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+b1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed login login 1:4.4-4.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.3s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stretch2next/reference-chroot-metadata.dat 0m3.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m3.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m3.5s INFO: Running scripts is_testable 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/is_testable_uninstallable'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/is_testable_uninstallable'] 0m3.5s INFO: Running scripts pre_test 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_test_exceptions'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_test_exceptions'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_test_root_password'] 0m3.6s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_test_root_password'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'show', '--no-all-versions', 'med-cloud'] 0m3.7s DUMP: Package: med-cloud Source: debian-med Version: 3.0.1 Installed-Size: 35 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 3.0.1), med-config (= 3.0.1) Recommends: abyss, acedb-other, aevol, alien-hunter, altree, amap-align, ampliconnoise, anfo, aragorn, arden, autodock, autodock-vina, autogrid, bamtools, bedtools, biomaj, bioperl, bioperl-run, biosquid, blast2, bowtie, bowtie2, boxshade, bwa, cain, cassiopee, cd-hit, cdbfasta, circos, clearcut, clonalframe, clustalo, clustalw, concavity, conservation-code, datamash, dialign, dialign-tx, discosnp, disulfinder, dnaclust, dssp, embassy-domainatrix, embassy-domalign, embassy-domsearch, emboss, exonerate, fastdnaml, fastlink, fastqc, fasttree, fastx-toolkit, filo, fitgcp, flexbar, freecontact, gasic, genometools, gff2aplot, gff2ps, giira, glam2, grinder, gromacs, hhsuite, hmmer, idba, infernal, jellyfish, kalign, kissplice, last-align, loki, macs, mafft, mapsembler2, maq, melting, minia, mipe, mira-assembler, mlv-smile, mothur, mrbayes, mummer, muscle, mustang, ncbi-epcr, ncbi-tools-bin, ncoils, neobio, paraclu, parsinsert, pdb2pqr, perm, phyml, phyutility, picard-tools, plink, poa, prank, prime-phylo, primer3, probabel, probcons, proda, prodigal, pynast, python-biopython, python-cogent, python3-biopython, r-bioc-edger, r-bioc-hilbertvis, r-cran-pvclust, r-cran-qtl, r-cran-vegan, r-other-mott-happy.hbrem, raster3d, readseq, rnahybrid, rtax, samtools, seqan-apps, sibsim4, sigma-align, sim4, smalt, snap, soapdenovo, soapdenovo2, squizz, sra-toolkit, ssake, staden-io-lib-utils, t-coffee, tabix, theseus, tigr-glimmer, tophat, tree-puzzle | tree-ppuzzle, vcftools, velvet, wise, zalign Suggests: bagpipe, cufflinks, embassy-phylip, gmap, qiime, r-other-valdar-bagphenotype.library Description-en: Debian Med bioinformatics applications usable in cloud computing This metapackage will install Debian packages related to molecular biology, structural biology and bioinformatics for use in life sciences, that do not depend on graphical toolkits and therefore can fit on system images for use in cloud computing clusters, where space can be limited. Description-md5: 8580600ffc7b786c93529ecf82882c1a Tag: field::biology:molecular, role::metapackage Section: misc Priority: extra Filename: pool/main/d/debian-med/med-cloud_3.0.1_all.deb Size: 15550 MD5sum: c030c33cd6cd52d6080fc4bf9eb979f1 SHA256: d6cd199748d3199304097d080797ccbab08fec6b411431003ce6ca55cd7f6cd8 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'show', '--no-all-versions', 'med-cloud'] 0m3.7s INFO: apt-cache knows about the following packages: med-cloud 0m3.7s INFO: Running scripts pre_install 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_database-server'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_database-server'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_exceptions'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_exceptions'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_extras'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_extras'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy'] 0m3.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy', 'med-cloud'] 0m3.9s DUMP: med-cloud: Installed: (none) Candidate: 3.0.1 Version table: 3.0.1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy', 'med-cloud'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-y', 'install', 'med-cloud'] 0m5.4s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: blends-common liblocale-gettext-perl med-config med-tasks menu tasksel tasksel-data Suggested packages: blends-doc bagpipe cufflinks embassy-phylip gmap qiime r-other-valdar-bagphenotype.library menu-l10n gksu | kde-runtime | ktsuss Recommended packages: abyss acedb-other aevol alien-hunter altree amap-align ampliconnoise anfo aragorn arden autodock autodock-vina autogrid bamtools bedtools biomaj bioperl bioperl-run biosquid blast2 bowtie bowtie2 boxshade bwa cain cassiopee cd-hit cdbfasta circos clearcut clonalframe clustalo clustalw concavity conservation-code datamash dialign dialign-tx discosnp disulfinder dnaclust dssp embassy-domainatrix embassy-domalign embassy-domsearch emboss exonerate fastdnaml fastlink fastqc fasttree fastx-toolkit filo fitgcp flexbar freecontact gasic genometools gff2aplot gff2ps giira glam2 grinder gromacs hhsuite hmmer idba infernal jellyfish kalign kissplice last-align loki macs mafft mapsembler2 maq melting minia mipe mira-assembler mlv-smile mothur mrbayes mummer muscle mustang ncbi-epcr ncbi-tools-bin ncoils neobio paraclu parsinsert pdb2pqr perm phyml phyutility picard-tools plink poa prank prime-phylo primer3 probabel probcons proda prodigal pynast python-biopython python-cogent python3-biopython r-bioc-edger r-bioc-hilbertvis r-cran-pvclust r-cran-qtl r-cran-vegan r-other-mott-happy.hbrem raster3d readseq rnahybrid rtax samtools seqan-apps sibsim4 sigma-align sim4 smalt snap soapdenovo soapdenovo2 squizz sra-toolkit ssake staden-io-lib-utils t-coffee tabix theseus tigr-glimmer tophat tree-puzzle | tree-ppuzzle vcftools velvet wise zalign laptop-detect The following NEW packages will be installed: blends-common liblocale-gettext-perl med-cloud med-config med-tasks menu tasksel tasksel-data 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 581 kB of archives. After this operation, 2310 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian stretch/main amd64 liblocale-gettext-perl amd64 1.07-3+b1 [18.7 kB] Get:2 http://deb.debian.org/debian stretch/main amd64 tasksel-data all 3.39 [18.1 kB] Get:3 http://deb.debian.org/debian stretch/main amd64 tasksel all 3.39 [94.6 kB] Get:4 http://deb.debian.org/debian stretch/main amd64 menu amd64 2.1.47+b1 [380 kB] Get:5 http://deb.debian.org/debian stretch/main amd64 blends-common all 0.6.96 [23.3 kB] Get:6 http://deb.debian.org/debian stretch/main amd64 med-tasks all 3.0.1 [14.3 kB] Get:7 http://deb.debian.org/debian stretch/main amd64 med-config all 3.0.1 [17.1 kB] Get:8 http://deb.debian.org/debian stretch/main amd64 med-cloud all 3.0.1 [15.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 581 kB in 0s (7160 kB/s) Selecting previously unselected package liblocale-gettext-perl. (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 ... 4411 files and directories currently installed.) Preparing to unpack .../0-liblocale-gettext-perl_1.07-3+b1_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-3+b1) ... Selecting previously unselected package tasksel-data. Preparing to unpack .../1-tasksel-data_3.39_all.deb ... Unpacking tasksel-data (3.39) ... Selecting previously unselected package tasksel. Preparing to unpack .../2-tasksel_3.39_all.deb ... Unpacking tasksel (3.39) ... Selecting previously unselected package menu. Preparing to unpack .../3-menu_2.1.47+b1_amd64.deb ... Unpacking menu (2.1.47+b1) ... Selecting previously unselected package blends-common. Preparing to unpack .../4-blends-common_0.6.96_all.deb ... Unpacking blends-common (0.6.96) ... Selecting previously unselected package med-tasks. Preparing to unpack .../5-med-tasks_3.0.1_all.deb ... Unpacking med-tasks (3.0.1) ... Selecting previously unselected package med-config. Preparing to unpack .../6-med-config_3.0.1_all.deb ... Unpacking med-config (3.0.1) ... Selecting previously unselected package med-cloud. Preparing to unpack .../7-med-cloud_3.0.1_all.deb ... Unpacking med-cloud (3.0.1) ... Setting up menu (2.1.47+b1) ... Setting up liblocale-gettext-perl (1.07-3+b1) ... Processing triggers for menu (2.1.47+b1) ... Setting up blends-common (0.6.96) ... Setting up med-config (3.0.1) ... Adding group `med' (GID 150) ... Done. Setting up tasksel (3.39) ... Setting up med-tasks (3.0.1) ... Setting up med-cloud (3.0.1) ... Setting up tasksel-data (3.39) ... Processing triggers for menu (2.1.47+b1) ... 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-y', 'install', 'med-cloud'] 0m5.4s INFO: Running scripts post_install 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_install_exceptions'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_install_exceptions'] 0m5.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m5.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m5.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp_rmbtt74 to stretch-lts 0m5.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main deb http://security.debian.org stretch/updates main 0m5.6s INFO: Running scripts pre_distupgrade 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m5.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_exceptions'] 0m5.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_exceptions'] 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m5.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'update'] 0m6.8s DUMP: Get:1 http://security.debian.org stretch/updates InRelease [59.1 kB] Ign:2 http://deb.debian.org/debian stretch InRelease Hit:3 http://deb.debian.org/debian stretch Release Get:4 http://security.debian.org stretch/updates/main amd64 Packages [782 kB] Get:5 http://security.debian.org stretch/updates/main Translation-en [368 kB] Fetched 1209 kB in 0s (2959 kB/s) Reading package lists... 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'update'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-yf', 'dist-upgrade'] 0m9.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt debian-archive-keyring dpkg e2fslibs e2fsprogs gzip libapt-pkg5.0 libcomerr2 libgcrypt20 liblz4-1 liblzma5 libss2 libsystemd0 libudev1 login passwd tar zlib1g 18 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 9594 kB of archives. After this operation, 50.2 kB of additional disk space will be used. Get:1 http://security.debian.org stretch/updates/main amd64 tar amd64 1.29b-1.1+deb9u1 [760 kB] Get:2 http://security.debian.org stretch/updates/main amd64 dpkg amd64 1.18.26 [2117 kB] Get:3 http://security.debian.org stretch/updates/main amd64 e2fslibs amd64 1.43.4-2+deb9u2 [208 kB] Get:4 http://security.debian.org stretch/updates/main amd64 e2fsprogs amd64 1.43.4-2+deb9u2 [948 kB] Get:5 http://security.debian.org stretch/updates/main amd64 gzip amd64 1.6-5+deb9u1 [114 kB] Get:6 http://security.debian.org stretch/updates/main amd64 login amd64 1:4.4-4.1+deb9u1 [790 kB] Get:7 http://security.debian.org stretch/updates/main amd64 debian-archive-keyring all 2017.5+deb9u2 [92.4 kB] Get:8 http://security.debian.org stretch/updates/main amd64 liblz4-1 amd64 0.0~r131-2+deb9u1 [33.2 kB] Get:9 http://security.debian.org stretch/updates/main amd64 liblzma5 amd64 5.2.2-1.2+deb9u1 [234 kB] Get:10 http://security.debian.org stretch/updates/main amd64 zlib1g amd64 1:1.2.8.dfsg-5+deb9u1 [87.8 kB] Get:11 http://security.debian.org stretch/updates/main amd64 libapt-pkg5.0 amd64 1.4.11 [917 kB] Get:12 http://security.debian.org stretch/updates/main amd64 apt amd64 1.4.11 [1232 kB] Get:13 http://security.debian.org stretch/updates/main amd64 libsystemd0 amd64 232-25+deb9u14 [282 kB] Get:14 http://security.debian.org stretch/updates/main amd64 libcomerr2 amd64 1.43.4-2+deb9u2 [63.8 kB] Get:15 http://security.debian.org stretch/updates/main amd64 libss2 amd64 1.43.4-2+deb9u2 [68.0 kB] Get:16 http://security.debian.org stretch/updates/main amd64 passwd amd64 1:4.4-4.1+deb9u1 [997 kB] Get:17 http://security.debian.org stretch/updates/main amd64 libudev1 amd64 232-25+deb9u14 [126 kB] Get:18 http://security.debian.org stretch/updates/main amd64 libgcrypt20 amd64 1.7.6-2+deb9u4 [523 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9594 kB in 0s (77.6 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 ... 4810 files and directories currently installed.) Preparing to unpack .../tar_1.29b-1.1+deb9u1_amd64.deb ... Unpacking tar (1.29b-1.1+deb9u1) over (1.29b-1.1) ... Setting up tar (1.29b-1.1+deb9u1) ... (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 ... 4810 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.43.4-2+deb9u2_amd64.deb ... Unpacking e2fsprogs (1.43.4-2+deb9u2) over (1.43.4-2+deb9u1) ... Setting up e2fsprogs (1.43.4-2+deb9u2) ... (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 ... 4810 files and directories currently installed.) Preparing to unpack .../libapt-pkg5.0_1.4.11_amd64.deb ... Unpacking libapt-pkg5.0:amd64 (1.4.11) over (1.4.10) ... Setting up libapt-pkg5.0:amd64 (1.4.11) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4810 files and directories currently installed.) Preparing to unpack .../archives/apt_1.4.11_amd64.deb ... Unpacking apt (1.4.11) over (1.4.10) ... Setting up apt (1.4.11) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4810 files and directories currently installed.) Preparing to unpack .../libsystemd0_232-25+deb9u14_amd64.deb ... Unpacking libsystemd0:amd64 (232-25+deb9u14) over (232-25+deb9u12) ... Setting up libsystemd0:amd64 (232-25+deb9u14) ... (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 ... 4810 files and directories currently installed.) Preparing to unpack .../libcomerr2_1.43.4-2+deb9u2_amd64.deb ... Unpacking libcomerr2:amd64 (1.43.4-2+deb9u2) over (1.43.4-2+deb9u1) ... Setting up libcomerr2:amd64 (1.43.4-2+deb9u2) ... (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 ... 4810 files and directories currently installed.) Preparing to unpack .../libss2_1.43.4-2+deb9u2_amd64.deb ... Unpacking libss2:amd64 (1.43.4-2+deb9u2) over (1.43.4-2+deb9u1) ... Setting up libss2:amd64 (1.43.4-2+deb9u2) ... (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 ... 4810 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.4-4.1+deb9u1_amd64.deb ... Unpacking passwd (1:4.4-4.1+deb9u1) over (1:4.4-4.1) ... Setting up passwd (1:4.4-4.1+deb9u1) ... (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 ... 4810 files and directories currently installed.) Preparing to unpack .../libudev1_232-25+deb9u14_amd64.deb ... Unpacking libudev1:amd64 (232-25+deb9u14) over (232-25+deb9u12) ... Setting up libudev1:amd64 (232-25+deb9u14) ... (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 ... 4810 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.7.6-2+deb9u4_amd64.deb ... Unpacking libgcrypt20:amd64 (1.7.6-2+deb9u4) over (1.7.6-2+deb9u3) ... Setting up libgcrypt20:amd64 (1.7.6-2+deb9u4) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-yf', 'dist-upgrade'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.8s DUMP: f0660a0a38f941b755664f52e8306b99 - 0m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'show', '--no-all-versions', 'med-cloud'] 0m10.0s DUMP: Package: med-cloud Source: debian-med Version: 3.0.1 Installed-Size: 35 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 3.0.1), med-config (= 3.0.1) Recommends: abyss, acedb-other, aevol, alien-hunter, altree, amap-align, ampliconnoise, anfo, aragorn, arden, autodock, autodock-vina, autogrid, bamtools, bedtools, biomaj, bioperl, bioperl-run, biosquid, blast2, bowtie, bowtie2, boxshade, bwa, cain, cassiopee, cd-hit, cdbfasta, circos, clearcut, clonalframe, clustalo, clustalw, concavity, conservation-code, datamash, dialign, dialign-tx, discosnp, disulfinder, dnaclust, dssp, embassy-domainatrix, embassy-domalign, embassy-domsearch, emboss, exonerate, fastdnaml, fastlink, fastqc, fasttree, fastx-toolkit, filo, fitgcp, flexbar, freecontact, gasic, genometools, gff2aplot, gff2ps, giira, glam2, grinder, gromacs, hhsuite, hmmer, idba, infernal, jellyfish, kalign, kissplice, last-align, loki, macs, mafft, mapsembler2, maq, melting, minia, mipe, mira-assembler, mlv-smile, mothur, mrbayes, mummer, muscle, mustang, ncbi-epcr, ncbi-tools-bin, ncoils, neobio, paraclu, parsinsert, pdb2pqr, perm, phyml, phyutility, picard-tools, plink, poa, prank, prime-phylo, primer3, probabel, probcons, proda, prodigal, pynast, python-biopython, python-cogent, python3-biopython, r-bioc-edger, r-bioc-hilbertvis, r-cran-pvclust, r-cran-qtl, r-cran-vegan, r-other-mott-happy.hbrem, raster3d, readseq, rnahybrid, rtax, samtools, seqan-apps, sibsim4, sigma-align, sim4, smalt, snap, soapdenovo, soapdenovo2, squizz, sra-toolkit, ssake, staden-io-lib-utils, t-coffee, tabix, theseus, tigr-glimmer, tophat, tree-puzzle | tree-ppuzzle, vcftools, velvet, wise, zalign Suggests: bagpipe, cufflinks, embassy-phylip, gmap, qiime, r-other-valdar-bagphenotype.library Description-en: Debian Med bioinformatics applications usable in cloud computing This metapackage will install Debian packages related to molecular biology, structural biology and bioinformatics for use in life sciences, that do not depend on graphical toolkits and therefore can fit on system images for use in cloud computing clusters, where space can be limited. Description-md5: 8580600ffc7b786c93529ecf82882c1a Tag: field::biology:molecular, role::metapackage Section: misc Priority: extra Filename: pool/main/d/debian-med/med-cloud_3.0.1_all.deb Size: 15550 MD5sum: c030c33cd6cd52d6080fc4bf9eb979f1 SHA256: d6cd199748d3199304097d080797ccbab08fec6b411431003ce6ca55cd7f6cd8 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'show', '--no-all-versions', 'med-cloud'] 0m10.0s INFO: apt-cache knows about the following packages: med-cloud 0m10.0s INFO: Running scripts pre_install 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_database-server'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_database-server'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_exceptions'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_exceptions'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_extras'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_extras'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy'] 0m10.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://security.debian.org stretch/updates/main amd64 Packages release v=9,o=Debian,a=oldoldstable,n=stretch,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy', 'med-cloud'] 0m10.1s DUMP: med-cloud: Installed: 3.0.1 Candidate: 3.0.1 Version table: *** 3.0.1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 100 /var/lib/dpkg/status 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy', 'med-cloud'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-y', 'install', 'med-cloud'] 0m10.4s DUMP: Reading package lists... Building dependency tree... Reading state information... med-cloud is already the newest version (3.0.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-y', 'install', 'med-cloud'] 0m10.4s INFO: Running scripts post_install 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_install_exceptions'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_install_exceptions'] 0m10.4s INFO: Running scripts post_distupgrade 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_exceptions'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_exceptions'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_zz_backports'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_distupgrade_zz_backports'] 0m10.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m10.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m10.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m11.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m11.0s INFO: Running scripts pre_install 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_database-server'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_database-server'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_exceptions'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_exceptions'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_extras'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_extras'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy'] 0m11.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://security.debian.org stretch/updates/main amd64 Packages release v=9,o=Debian,a=oldoldstable,n=stretch,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy', 'med-cloud'] 0m11.1s DUMP: med-cloud: Installed: 3.0.1 Candidate: 3.0.1 Version table: *** 3.0.1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 100 /var/lib/dpkg/status 0m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-cache', 'policy', 'med-cloud'] 0m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-y', 'install', 'med-cloud=3.0.1'] 0m11.4s DUMP: Reading package lists... Building dependency tree... Reading state information... med-cloud is already the newest version (3.0.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', '-y', 'install', 'med-cloud=3.0.1'] 0m11.4s INFO: Running scripts post_install 0m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_install_exceptions'] 0m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_install_exceptions'] 0m11.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m11.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m11.8s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', '-ac', '--ignore-obsolete'] 0m12.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', '-ac', '--ignore-obsolete'] 0m12.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m12.3s DUMP: 0.15.6 0m12.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m12.3s INFO: Running adequate version 0.15.6 now. 0m12.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'med-cloud'] 0m12.4s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'med-cloud'] 0m12.4s INFO: Running scripts pre_remove 0m12.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m12.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m12.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m12.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m12.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_exceptions'] 0m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/pre_remove_exceptions'] 0m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m12.9s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.11 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed blends-common blends-common 0.6.96 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u2 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.26 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u2 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u2 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+deb9u1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.11 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u4 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.07-3+b1 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+deb9u1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+deb9u1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u2 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u14 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u14 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed login login 1:4.4-4.1+deb9u1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed med-cloud med-cloud 3.0.1 install ok installed med-config med-config 3.0.1 install ok installed med-tasks med-tasks 3.0.1 install ok installed menu menu 2.1.47+b1 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1+deb9u1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1+deb9u1 install ok installed tasksel tasksel 3.39 install ok installed tasksel-data tasksel-data 3.39 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5+deb9u1 0m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'remove', 'blends-common', 'liblocale-gettext-perl', 'med-config', 'med-tasks', 'menu', 'tasksel', 'tasksel-data', 'med-cloud'] 0m13.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: blends-common liblocale-gettext-perl med-cloud med-config med-tasks menu tasksel tasksel-data 0 upgraded, 0 newly installed, 8 to remove and 0 not upgraded. After this operation, 2310 kB 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 ... 4810 files and directories currently installed.) Removing med-cloud (3.0.1) ... Removing med-config (3.0.1) ... Removing blends-common (0.6.96) ... Removing med-tasks (3.0.1) ... Removing menu (2.1.47+b1) ... Removing tasksel (3.39) ... Removing tasksel-data (3.39) ... Removing liblocale-gettext-perl (1.07-3+b1) ... 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'remove', 'blends-common', 'liblocale-gettext-perl', 'med-config', 'med-tasks', 'menu', 'tasksel', 'tasksel-data', 'med-cloud'] 0m13.5s INFO: Running scripts post_remove 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_remove_exceptions'] 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_remove_exceptions'] 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--purge', 'blends-common', 'liblocale-gettext-perl', 'med-config', 'med-tasks', 'menu', 'tasksel', 'tasksel-data'] 0m13.6s DUMP: (Reading database ... 4422 files and directories currently installed.) Purging configuration files for blends-common (0.6.96) ... dpkg: warning: ignoring request to remove liblocale-gettext-perl which isn't installed Purging configuration files for med-config (3.0.1) ... dpkg: warning: ignoring request to remove med-tasks which isn't installed Purging configuration files for menu (2.1.47+b1) ... Purging configuration files for tasksel (3.39) ... dpkg: warning: ignoring request to remove tasksel-data which isn't installed 0m13.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--purge', 'blends-common', 'liblocale-gettext-perl', 'med-config', 'med-tasks', 'menu', 'tasksel', 'tasksel-data'] 0m13.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--purge', 'med-cloud'] 0m13.7s DUMP: dpkg: warning: ignoring request to remove med-cloud which isn't installed 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--purge', 'med-cloud'] 0m13.7s INFO: Running scripts post_purge 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_purge_exceptions'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_purge_exceptions'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--purge', '--pending'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--purge', '--pending'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--remove', '--pending'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg', '--remove', '--pending'] 0m13.7s INFO: Running scripts post_test 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_test_exceptions'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'tmp/scripts/post_test_exceptions'] 0m13.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m13.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m13.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg-divert', '--list'] 0m14.0s 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 0m14.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'dpkg-divert', '--list'] 0m14.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'clean'] 0m14.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74', 'apt-get', 'clean'] 0m14.0s DEBUG: Recording chroot state 0m14.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/shm'] 0m14.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/shm'] 0m14.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/console'] 0m14.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/console'] 0m14.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/ptmx'] 0m14.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/ptmx'] 0m14.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/pts'] 0m14.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/dev/pts'] 0m14.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/proc'] 0m14.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74/proc'] 0m14.7s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m14.7s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_rmbtt74'] 0m14.7s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp_rmbtt74 0m14.7s INFO: PASS: Upgrading between Debian distributions. 0m14.7s INFO: PASS: All tests. 0m14.7s INFO: piuparts run ends. ret=0 End: 2023-03-20 08:03:01 GMT