Start: 2023-01-20 17:48:04 GMT [jessie] Package: med-bio-dev Source: debian-med Version: 2.0 Installed-Size: 71 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 2.0), med-config (= 2.0) Recommends: bioperl, bioperl-run, biosquid, libace-perl, libai-fann-perl, libbambamc-dev, libbamtools-dev, libbio-graphics-perl, libbio-mage-perl, libbio-mage-utils-perl, libbio-primerdesigner-perl, libbiococoa-dev, libbiojava-java, libbiojava3-java, libchado-perl, libffindex0-dev, libfreecontact-perl, libfreecontact0-dev, libgenome-1.3-dev, libgenome-model-tools-music-perl, libgenome-perl, libgenometools0-dev, libgo-perl, libhmsbeagle-dev, libhts-dev, libjebl2-java, libncbi6-dev, libnhgri-blastall-perl, libopenms-dev, libpal-java, librcsb-core-wrapper0-dev, librelion-dev, librg-blast-parser-perl, librg-reprof-bundle-perl, librostlab-blast0-dev, librostlab3-dev, libsbml5-dev, libsnp-sites1-dev, libsort-key-top-perl, libsrf-dev, libssm-dev, libstaden-read-dev, libtfbs-perl, libvibrant6-dev, libzerg-perl, libzerg0-dev, mcl, pyfai, python-biom-format, python-biopython | python3-biopython, python-cogent, python-corepywrap, python-csb | python3-csb, python-freecontact, python-htseq, python-mmtk, python-pysam, python-rdkit, r-bioc-biobase, r-cran-genetics, r-cran-haplo.stats, ruby-bio, sbmltoolbox, seqan-dev Suggests: bioclipse, libbio-das-perl, libforester-java, libfreecontact-doc, libgbfp-dev, libgff-perl, libgtextutils-dev, libmems-1.5-1, librostlab-blast-doc, librostlab-doc, libswarm2-dev, octace-bioinfo, python-biopython-doc, python-biopython-sql | python3-biopython-sql, r-bioc-affy, r-cran-rocr Description: Debian Med packages for development of micro-biology applications Description-md5: 6b4ac97526fecc4b85a11ebdfc6ce754 Tag: field::biology, role::metapackage, suite::debian, use::TODO Section: misc Priority: extra Filename: pool/main/d/debian-med/med-bio-dev_2.0_all.deb Size: 13188 MD5sum: 77de47ffb95887e7ac12366e1dc22ef2 SHA1: aa41979216a86d553befc61be6b7c162308209e9 SHA256: 3f7ea0b4505a83186059a577bffffff60eed94288219623be3599c84aa6e6638 [stretch] Package: med-bio-dev Source: debian-med Version: 3.0.1 Installed-Size: 39 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 3.0.1), med-config (= 3.0.1) Recommends: bioperl, bioperl-run, biosquid, libace-perl, libai-fann-perl, libbambamc-dev, libbamtools-dev, libbio-coordinate-perl, libbio-das-lite-perl, libbio-graphics-perl, libbio-mage-perl, libbio-mage-utils-perl, libbio-primerdesigner-perl, libbiococoa-dev, libbiojava-java, libbiojava4-java, libblasr-dev, libbpp-core-dev, libbpp-phyl-dev, libbpp-phyl-omics-dev, libbpp-popgen-dev, libbpp-qt-dev, libbpp-raa-dev, libbpp-seq-dev, libbpp-seq-omics-dev, libchado-perl, libconsensuscore-dev, libdivsufsort-dev, libfast5-dev, libfastahack-dev, libffindex0-dev, libfml-dev, libfreecontact-dev, libfreecontact-perl, libgenome-1.3-dev, libgenome-model-tools-music-perl, libgenome-perl, libgenometools0-dev, libgff-dev, libgkarrays-dev, libgo-perl, libhmsbeagle-dev, libhts-dev, libhtsjdk-java, libjebl2-java, libjloda-java, libkmer-dev, libmems-1.6-dev, libminimap-dev, libmuscle-3.7-dev, libncbi-vdb-dev, libncbi6-dev, libncl-dev, libngs-java, libngs-sdk-dev, libnhgri-blastall-perl, libpal-java, libpbbam-dev, libpbdata-dev, libpbihdf-dev, libpbseq-dev, libqes-dev, librcsb-core-wrapper0-dev, librdp-taxonomy-tree-java, librelion-dev, librg-blast-parser-perl, librg-reprof-bundle-perl, librostlab-blast0-dev, librostlab3-dev, libsbml5-dev, libsmithwaterman-dev, libsnp-sites1-dev, libsort-key-top-perl, libsrf-dev, libssw-dev, libssw-java, libstaden-read-dev, libswiss-perl, libtabixpp-dev, libtfbs-perl, libvcflib-dev, libvibrant6-dev, libzerg-perl, libzerg0-dev, mcl, pyfai, python-biom-format, python-cobra, python-cogent, python-corepywrap, python-freecontact, python-htseq, python-kineticstools, python-pbcommand, python-pbcore, python-pbh5tools, python-pysam, python-rdkit, python-screed, python3-biopython | python-biopython, python3-csb | python-csb, python3-cutadapt | python-cutadapt, python3-dendropy | python-dendropy, python3-fast5 | python-fast5, python3-intervaltree-bio | python-intervaltree-bio, python3-ngs | python-ngs, python3-pbconsensuscore | python-pbconsensuscore, python3-pyfaidx | python-pyfaidx, python3-pymummer, python3-pyvcf | python-pyvcf, python3-ruffus | python-ruffus, python3-skbio, r-bioc-biobase, r-cran-genetics, r-cran-haplo.stats, r-cran-phylobase, r-cran-rncl, r-cran-rnexml, ruby-bio, ruby-crb-blast, sbmltoolbox, seqan-dev Suggests: bio-tradis, bioclipse, libbam-dev, libbio-eutilities-perl, libbiod-dev, libdisorder-dev, libforester-java, libfreecontact-doc, libgff-perl, libgtextutils-dev, libopenms-dev, libpbcopper-dev, libqcpp-dev, libroadrunner-dev, librostlab-blast-doc, librostlab-doc, libseqlib-dev, libssm-dev, libswarm2-dev, mgltools-networkeditor, mgltools-pybabel, mgltools-vision, octace-bioinfo, octave-bioinfo, python-bd2k, python-biomaj3, python-biopython-doc, python-biotools, python-bx, python-consensuscore2, python-hyphy, python-misopy, python-mmtk, python-pyfasta, python-pyflow, python-roadrunner, python3-bd2k, python3-biomaj3, python3-biopython-sql | python-biopython-sql, python3-biotools, python3-bx, python3-consensuscore2, python3-gffutils, python3-hyphy, python3-misopy, python3-pybedtools, python3-pyfasta, r-bioc-affy, r-bioc-affyio, r-bioc-altcdfenvs, r-bioc-annotationdbi, r-bioc-biocgenerics, r-bioc-biomart, r-bioc-biomformat, r-bioc-biovizbase, r-bioc-bsgenome, r-bioc-genomeinfodb, r-bioc-genomicalignments, r-bioc-genomicfeatures, r-bioc-genomicranges, r-bioc-graph, r-bioc-hypergraph, r-bioc-iranges, r-bioc-makecdfenv, r-bioc-preprocesscore, r-bioc-rbgl, r-bioc-rsamtools, r-bioc-shortread, r-bioc-snpstats, r-bioc-variantannotation, r-bioc-xvector, r-cran-natserv, r-cran-rentrez, r-cran-rocr, ruby-rgfa Description: Debian Med packages for development of bioinformatics applications Description-md5: 37702cc0a3fdb81629adc8f40d5c7d23 Tag: field::biology, role::metapackage, suite::debian, use::TODO Section: misc Priority: extra Filename: pool/main/d/debian-med/med-bio-dev_3.0.1_all.deb Size: 16298 MD5sum: 4e86a4177898be145bc5afb981bdf9b1 SHA256: 65a89ceff75a05ee0e931f1860f3f4ebf9003c2a8d29f59667d920f3e356d9ee Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --upgrade-before-dist-upgrade --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/jessie_amd64.tar.gz -d jessie -d stretch -B /srv/piuparts.debian.org/slave/refchroot/jessie2Xstretch-rcmd/reference-chroot-metadata.dat --apt med-bio-dev=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 --install-recommends --upgrade-before-dist-upgrade --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/jessie_amd64.tar.gz -d jessie -d stretch -B /srv/piuparts.debian.org/slave/refchroot/jessie2Xstretch-rcmd/reference-chroot-metadata.dat --apt med-bio-dev=3.0.1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-20-amd64 #1 SMP Debian 5.10.158-2 (2022-12-13) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpdnnrdxuh 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpdnnrdxuh 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz'] 0m1.7s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz'] 0m1.7s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/proc'] 0m1.7s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/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/tmpdnnrdxuh/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/tmpdnnrdxuh/dev/pts'] 0m1.7s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/ptmx'] 0m1.7s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/ptmx'] 0m1.7s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/console'] 0m1.7s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/console'] 0m1.7s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/shm'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/shm'] 0m1.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ jessie 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/tmpdnnrdxuh/tmp/scripts/ 0m1.8s INFO: Running scripts post_chroot_unpack 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'apt-get', 'update'] 0m3.9s DUMP: Ign http://deb.debian.org jessie InRelease Hit http://deb.debian.org jessie Release.gpg Hit http://deb.debian.org jessie Release Ign http://deb.debian.org jessie Release Hit http://deb.debian.org jessie/main Translation-en Hit http://deb.debian.org jessie/main amd64 Packages Reading package lists... W: GPG error: http://deb.debian.org jessie Release: The following signatures were invalid: KEYEXPIRED 1668891673 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'apt-get', 'update'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'apt-get', '-yf', 'dist-upgrade'] 0m4.1s DUMP: Reading package lists... Building dependency tree... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'apt-get', '-yf', 'dist-upgrade'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.3s DUMP: c58dd1ad19dd97acb5ff8b7cd65de431 - 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.3s INFO: Running scripts post_setup 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_dummy_users'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_dummy_users'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_forbid_home'] 0m5.0s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_forbid_home'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_minimize'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_minimize'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_zz_backports'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/post_setup_zz_backports'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DUMP: install ok installed acl acl 2.2.52-2 install ok installed adduser adduser 3.113+nmu3 install ok installed apt apt 1.0.9.8.4 install ok installed base-files base-files 8+deb8u11 install ok installed base-passwd base-passwd 3.5.37 install ok installed bash bash 4.3-11+deb8u1 install ok installed bsdutils bsdutils 1:2.25.2-6 install ok installed coreutils coreutils 8.23-4 install ok installed dash dash 0.5.7-4+b1 install ok installed debconf debconf 1.5.56+deb8u1 install ok installed debconf-i18n debconf-i18n 1.5.56+deb8u1 install ok installed debian-archive-keyring debian-archive-keyring 2017.5~deb8u1 install ok installed debianutils debianutils 4.4+b1 install ok installed diffutils diffutils 1:3.3-1+b1 install ok installed dmsetup dmsetup 2:1.02.90-2.2+deb8u1 install ok installed dpkg dpkg 1.17.27 install ok installed e2fslibs:amd64 e2fslibs 1.42.12-2+b1 install ok installed e2fsprogs e2fsprogs 1.42.12-2+b1 install ok installed findutils findutils 4.4.2-9+b1 install ok installed gcc-4.9-base:amd64 gcc-4.9-base 4.9.2-10+deb8u1 install ok installed gnupg gnupg 1.4.18-7+deb8u5 install ok installed gpgv gpgv 1.4.18-7+deb8u5 install ok installed grep grep 2.20-4.1 install ok installed gzip gzip 1.6-4 install ok installed hostname hostname 3.15 install ok installed init init 1.22 install ok installed initscripts initscripts 2.88dsf-59 install ok installed insserv insserv 1.14.0-5 install ok installed libacl1:amd64 libacl1 2.2.52-2 install ok installed libapt-pkg4.12:amd64 libapt-pkg4.12 1.0.9.8.4 install ok installed libattr1:amd64 libattr1 1:2.4.47-2 install ok installed libaudit-common libaudit-common 1:2.4-1 install ok installed libaudit1:amd64 libaudit1 1:2.4-1+b1 install ok installed libblkid1:amd64 libblkid1 2.25.2-6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-7+b3 install ok installed libc-bin libc-bin 2.19-18+deb8u10 install ok installed libc6:amd64 libc6 2.19-18+deb8u10 install ok installed libcap2:amd64 libcap2 1:2.24-8 install ok installed libcap2-bin libcap2-bin 1:2.24-8 install ok installed libcomerr2:amd64 libcomerr2 1.42.12-2+b1 install ok installed libcryptsetup4:amd64 libcryptsetup4 2:1.6.6-5 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-9+deb8u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.192 install ok installed libdevmapper1.02.1:amd64 libdevmapper1.02.1 2:1.02.90-2.2+deb8u1 install ok installed libgcc1:amd64 libgcc1 1:4.9.2-10+deb8u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.6.3-2+deb8u4 install ok installed libgpg-error0:amd64 libgpg-error0 1.17-3 install ok installed libkmod2:amd64 libkmod2 18-3 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.05-8+b1 install ok installed liblzma5:amd64 liblzma5 5.1.1alpha+20120614-2+b3 install ok installed libmount1:amd64 libmount1 2.25.2-6 install ok installed libncurses5:amd64 libncurses5 5.9+20140913-1+deb8u3 install ok installed libncursesw5:amd64 libncursesw5 5.9+20140913-1+deb8u3 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.1+deb8u2+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.1+deb8u2+b1 install ok installed libpam-runtime libpam-runtime 1.1.8-3.1+deb8u2 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.1+deb8u2+b1 install ok installed libpcre3:amd64 libpcre3 2:8.35-3.3+deb8u4 install ok installed libprocps3:amd64 libprocps3 2:3.3.9-9+deb8u1 install ok installed libreadline6:amd64 libreadline6 6.3-8+b3 install ok installed libselinux1:amd64 libselinux1 2.3-2 install ok installed libsemanage-common libsemanage-common 2.3-1 install ok installed libsemanage1:amd64 libsemanage1 2.3-1+b1 install ok installed libsepol1:amd64 libsepol1 2.3-2 install ok installed libslang2:amd64 libslang2 2.3.0-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.25.2-6 install ok installed libss2:amd64 libss2 1.42.12-2+b1 install ok installed libstdc++6:amd64 libstdc++6 4.9.2-10+deb8u1 install ok installed libsystemd0:amd64 libsystemd0 215-17+deb8u7 install ok installed libtext-charwidth-perl libtext-charwidth-perl 0.04-7+b3 install ok installed libtext-iconv-perl libtext-iconv-perl 1.7-5+b2 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-7 install ok installed libtinfo5:amd64 libtinfo5 5.9+20140913-1+deb8u3 install ok installed libudev1:amd64 libudev1 215-17+deb8u7 install ok installed libusb-0.1-4:amd64 libusb-0.1-4 2:0.1.12-25 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-3+b2 install ok installed libuuid1:amd64 libuuid1 2.25.2-6 install ok installed login login 1:4.2-3+deb8u4 install ok installed lsb-base lsb-base 4.1+Debian13+nmu1 install ok installed mawk mawk 1.3.3-17 install ok installed mount mount 2.25.2-6 install ok installed multiarch-support multiarch-support 2.19-18+deb8u10 install ok installed ncurses-base ncurses-base 5.9+20140913-1+deb8u3 install ok installed ncurses-bin ncurses-bin 5.9+20140913-1+deb8u3 install ok installed passwd passwd 1:4.2-3+deb8u4 install ok installed perl-base perl-base 5.20.2-3+deb8u11 install ok installed procps procps 2:3.3.9-9+deb8u1 install ok installed readline-common readline-common 6.3-8 install ok installed sed sed 4.2.2-4+deb8u1 install ok installed sensible-utils sensible-utils 0.0.9+deb8u1 install ok installed startpar startpar 0.59-3 install ok installed systemd systemd 215-17+deb8u7 install ok installed systemd-sysv systemd-sysv 215-17+deb8u7 install ok installed sysv-rc sysv-rc 2.88dsf-59 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59 install ok installed tar tar 1.27.1-2+deb8u1 install ok installed tzdata tzdata 2018e-0+deb8u1 install ok installed udev udev 215-17+deb8u7 install ok installed util-linux util-linux 2.25.2-6 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-2+b1 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/jessie2Xstretch-rcmd/reference-chroot-metadata.dat 0m5.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh'] 0m5.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh'] 0m5.4s INFO: Running scripts is_testable 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/is_testable_uninstallable'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/is_testable_uninstallable'] 0m5.4s INFO: Running scripts pre_test 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/pre_test_exceptions'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/pre_test_exceptions'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/pre_test_root_password'] 0m5.4s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/pre_test_root_password'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'apt-cache', 'show', '--no-all-versions', 'med-bio-dev'] 0m5.5s DUMP: Package: med-bio-dev Source: debian-med Version: 2.0 Installed-Size: 71 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 2.0), med-config (= 2.0) Recommends: bioperl, bioperl-run, biosquid, libace-perl, libai-fann-perl, libbambamc-dev, libbamtools-dev, libbio-graphics-perl, libbio-mage-perl, libbio-mage-utils-perl, libbio-primerdesigner-perl, libbiococoa-dev, libbiojava-java, libbiojava3-java, libchado-perl, libffindex0-dev, libfreecontact-perl, libfreecontact0-dev, libgenome-1.3-dev, libgenome-model-tools-music-perl, libgenome-perl, libgenometools0-dev, libgo-perl, libhmsbeagle-dev, libhts-dev, libjebl2-java, libncbi6-dev, libnhgri-blastall-perl, libopenms-dev, libpal-java, librcsb-core-wrapper0-dev, librelion-dev, librg-blast-parser-perl, librg-reprof-bundle-perl, librostlab-blast0-dev, librostlab3-dev, libsbml5-dev, libsnp-sites1-dev, libsort-key-top-perl, libsrf-dev, libssm-dev, libstaden-read-dev, libtfbs-perl, libvibrant6-dev, libzerg-perl, libzerg0-dev, mcl, pyfai, python-biom-format, python-biopython | python3-biopython, python-cogent, python-corepywrap, python-csb | python3-csb, python-freecontact, python-htseq, python-mmtk, python-pysam, python-rdkit, r-bioc-biobase, r-cran-genetics, r-cran-haplo.stats, ruby-bio, sbmltoolbox, seqan-dev Suggests: bioclipse, libbio-das-perl, libforester-java, libfreecontact-doc, libgbfp-dev, libgff-perl, libgtextutils-dev, libmems-1.5-1, librostlab-blast-doc, librostlab-doc, libswarm2-dev, octace-bioinfo, python-biopython-doc, python-biopython-sql | python3-biopython-sql, r-bioc-affy, r-cran-rocr Description-en: Debian Med packages for development of micro-biology applications This metapackage will install Debian packages which might be helpful for development of applications for micro-biological research. Description-md5: 6b4ac97526fecc4b85a11ebdfc6ce754 Tag: field::biology, role::metapackage, suite::debian, use::TODO Section: misc Priority: extra Filename: pool/main/d/debian-med/med-bio-dev_2.0_all.deb Size: 13188 MD5sum: 77de47ffb95887e7ac12366e1dc22ef2 SHA1: aa41979216a86d553befc61be6b7c162308209e9 SHA256: 3f7ea0b4505a83186059a577bffffff60eed94288219623be3599c84aa6e6638 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'apt-cache', 'show', '--no-all-versions', 'med-bio-dev'] 0m5.5s INFO: apt-cache knows about the following packages: med-bio-dev 0m5.5s INFO: Running scripts pre_install 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/pre_install_database-server'] 0m5.7s DUMP: Installing postgresql... Reading package lists... Building dependency tree... The following extra packages will be installed: bsd-mailx cron exim4 exim4-base exim4-config exim4-daemon-light file ifupdown init-system-helpers iproute2 isc-dhcp-client isc-dhcp-common krb5-locales libalgorithm-c3-perl libarchive-extract-perl libatm1 libbsd0 libcgi-fast-perl libcgi-pm-perl libclass-c3-perl libclass-c3-xs-perl libcpan-meta-perl libdata-optlist-perl libdata-section-perl libdns-export100 libedit2 libexpat1 libfcgi-perl libffi6 libgdbm3 libgmp10 libgnutls-deb0-28 libgssapi-krb5-2 libhogweed2 libirs-export91 libisc-export95 libisccfg-export90 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 liblockfile-bin liblockfile1 liblog-message-perl liblog-message-simple-perl libmagic1 libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libmro-compat-perl libnettle4 libp11-kit0 libpackage-constants-perl libparams-util-perl libpod-latex-perl libpod-readme-perl libpopt0 libpq5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libregexp-common-perl libsasl2-2 libsasl2-modules libsasl2-modules-db libsoftware-license-perl libsqlite3-0 libssl1.0.0 libsub-exporter-perl libsub-install-perl libtasn1-6 libterm-ui-perl libtext-soundex-perl libtext-template-perl libxml2 libxtables10 locales logrotate lsb-release mime-support netbase openssl perl perl-modules postgresql-9.4 postgresql-client-9.4 postgresql-client-common postgresql-common psmisc python python-minimal python2.7 python2.7-minimal rename sgml-base ssl-cert ucf xml-core Suggested packages: anacron checksecurity mail-reader eximon4 exim4-doc-html exim4-doc-info spf-tools-perl swaks ppp rdnssd net-tools iproute2-doc resolvconf avahi-autoipd gnutls-bin krb5-doc krb5-user libsasl2-modules-otp libsasl2-modules-ldap libsasl2-modules-sql libsasl2-modules-gssapi-mit libsasl2-modules-gssapi-heimdal lsb ca-certificates perl-doc libterm-readline-gnu-perl libterm-readline-perl-perl make libb-lint-perl libcpanplus-dist-build-perl libcpanplus-perl libfile-checktree-perl libobject-accessor-perl postgresql-doc oidentd ident-server locales-all postgresql-doc-9.4 python-doc python-tk python2.7-doc binutils binfmt-support sgml-base-doc openssl-blacklist debhelper Recommended packages: mailx libarchive-tar-perl The following NEW packages will be installed: bsd-mailx cron exim4 exim4-base exim4-config exim4-daemon-light file ifupdown init-system-helpers iproute2 isc-dhcp-client isc-dhcp-common krb5-locales libalgorithm-c3-perl libarchive-extract-perl libatm1 libbsd0 libcgi-fast-perl libcgi-pm-perl libclass-c3-perl libclass-c3-xs-perl libcpan-meta-perl libdata-optlist-perl libdata-section-perl libdns-export100 libedit2 libexpat1 libfcgi-perl libffi6 libgdbm3 libgmp10 libgnutls-deb0-28 libgssapi-krb5-2 libhogweed2 libirs-export91 libisc-export95 libisccfg-export90 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 liblockfile-bin liblockfile1 liblog-message-perl liblog-message-simple-perl libmagic1 libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libmro-compat-perl libnettle4 libp11-kit0 libpackage-constants-perl libparams-util-perl libpod-latex-perl libpod-readme-perl libpopt0 libpq5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libregexp-common-perl libsasl2-2 libsasl2-modules libsasl2-modules-db libsoftware-license-perl libsqlite3-0 libssl1.0.0 libsub-exporter-perl libsub-install-perl libtasn1-6 libterm-ui-perl libtext-soundex-perl libtext-template-perl libxml2 libxtables10 locales logrotate lsb-release mime-support netbase openssl perl perl-modules postgresql postgresql-9.4 postgresql-client-9.4 postgresql-client-common postgresql-common psmisc python python-minimal python2.7 python2.7-minimal rename sgml-base ssl-cert ucf xml-core 0 upgraded, 100 newly installed, 0 to remove and 0 not upgraded. Need to get 33.2 MB of archives. After this operation, 127 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! init-system-helpers cron libgdbm3 libpopt0 libssl1.0.0 libbsd0 libedit2 libgmp10 libnettle4 libhogweed2 libffi6 libp11-kit0 libtasn1-6 libgnutls-deb0-28 libkeyutils1 libkrb5support0 libk5crypto3 libkrb5-3 libgssapi-krb5-2 libsasl2-modules-db libsasl2-2 libldap-2.4-2 liblockfile-bin liblockfile1 libmagic1 libsqlite3-0 libxml2 perl-modules perl libpython2.7-minimal python2.7-minimal python-minimal mime-support libexpat1 libpython2.7-stdlib python2.7 libpython-stdlib python libatm1 libisc-export95 libdns-export100 libisccfg-export90 libirs-export91 libpq5 sgml-base iproute2 ifupdown isc-dhcp-common isc-dhcp-client libxtables10 logrotate netbase exim4-config exim4-base exim4-daemon-light bsd-mailx exim4 file krb5-locales locales ucf libalgorithm-c3-perl libarchive-extract-perl libcgi-pm-perl libfcgi-perl libcgi-fast-perl libclass-c3-perl libclass-c3-xs-perl libcpan-meta-perl libparams-util-perl libsub-install-perl libdata-optlist-perl libmro-compat-perl libsub-exporter-perl libdata-section-perl liblog-message-perl liblog-message-simple-perl libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libpackage-constants-perl libpod-latex-perl libregexp-common-perl libpod-readme-perl libsasl2-modules libtext-template-perl libsoftware-license-perl libterm-ui-perl libtext-soundex-perl lsb-release openssl postgresql-client-common postgresql-client-9.4 ssl-cert postgresql-common postgresql-9.4 postgresql psmisc rename xml-core E: There are problems and -y was used without --force-yes 0m5.7s ERROR: Command failed (status=100): ['chroot', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh', 'tmp/scripts/pre_install_database-server'] Installing postgresql... Reading package lists... Building dependency tree... The following extra packages will be installed: bsd-mailx cron exim4 exim4-base exim4-config exim4-daemon-light file ifupdown init-system-helpers iproute2 isc-dhcp-client isc-dhcp-common krb5-locales libalgorithm-c3-perl libarchive-extract-perl libatm1 libbsd0 libcgi-fast-perl libcgi-pm-perl libclass-c3-perl libclass-c3-xs-perl libcpan-meta-perl libdata-optlist-perl libdata-section-perl libdns-export100 libedit2 libexpat1 libfcgi-perl libffi6 libgdbm3 libgmp10 libgnutls-deb0-28 libgssapi-krb5-2 libhogweed2 libirs-export91 libisc-export95 libisccfg-export90 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 liblockfile-bin liblockfile1 liblog-message-perl liblog-message-simple-perl libmagic1 libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libmro-compat-perl libnettle4 libp11-kit0 libpackage-constants-perl libparams-util-perl libpod-latex-perl libpod-readme-perl libpopt0 libpq5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libregexp-common-perl libsasl2-2 libsasl2-modules libsasl2-modules-db libsoftware-license-perl libsqlite3-0 libssl1.0.0 libsub-exporter-perl libsub-install-perl libtasn1-6 libterm-ui-perl libtext-soundex-perl libtext-template-perl libxml2 libxtables10 locales logrotate lsb-release mime-support netbase openssl perl perl-modules postgresql-9.4 postgresql-client-9.4 postgresql-client-common postgresql-common psmisc python python-minimal python2.7 python2.7-minimal rename sgml-base ssl-cert ucf xml-core Suggested packages: anacron checksecurity mail-reader eximon4 exim4-doc-html exim4-doc-info spf-tools-perl swaks ppp rdnssd net-tools iproute2-doc resolvconf avahi-autoipd gnutls-bin krb5-doc krb5-user libsasl2-modules-otp libsasl2-modules-ldap libsasl2-modules-sql libsasl2-modules-gssapi-mit libsasl2-modules-gssapi-heimdal lsb ca-certificates perl-doc libterm-readline-gnu-perl libterm-readline-perl-perl make libb-lint-perl libcpanplus-dist-build-perl libcpanplus-perl libfile-checktree-perl libobject-accessor-perl postgresql-doc oidentd ident-server locales-all postgresql-doc-9.4 python-doc python-tk python2.7-doc binutils binfmt-support sgml-base-doc openssl-blacklist debhelper Recommended packages: mailx libarchive-tar-perl The following NEW packages will be installed: bsd-mailx cron exim4 exim4-base exim4-config exim4-daemon-light file ifupdown init-system-helpers iproute2 isc-dhcp-client isc-dhcp-common krb5-locales libalgorithm-c3-perl libarchive-extract-perl libatm1 libbsd0 libcgi-fast-perl libcgi-pm-perl libclass-c3-perl libclass-c3-xs-perl libcpan-meta-perl libdata-optlist-perl libdata-section-perl libdns-export100 libedit2 libexpat1 libfcgi-perl libffi6 libgdbm3 libgmp10 libgnutls-deb0-28 libgssapi-krb5-2 libhogweed2 libirs-export91 libisc-export95 libisccfg-export90 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 liblockfile-bin liblockfile1 liblog-message-perl liblog-message-simple-perl libmagic1 libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libmro-compat-perl libnettle4 libp11-kit0 libpackage-constants-perl libparams-util-perl libpod-latex-perl libpod-readme-perl libpopt0 libpq5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libregexp-common-perl libsasl2-2 libsasl2-modules libsasl2-modules-db libsoftware-license-perl libsqlite3-0 libssl1.0.0 libsub-exporter-perl libsub-install-perl libtasn1-6 libterm-ui-perl libtext-soundex-perl libtext-template-perl libxml2 libxtables10 locales logrotate lsb-release mime-support netbase openssl perl perl-modules postgresql postgresql-9.4 postgresql-client-9.4 postgresql-client-common postgresql-common psmisc python python-minimal python2.7 python2.7-minimal rename sgml-base ssl-cert ucf xml-core 0 upgraded, 100 newly installed, 0 to remove and 0 not upgraded. Need to get 33.2 MB of archives. After this operation, 127 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! init-system-helpers cron libgdbm3 libpopt0 libssl1.0.0 libbsd0 libedit2 libgmp10 libnettle4 libhogweed2 libffi6 libp11-kit0 libtasn1-6 libgnutls-deb0-28 libkeyutils1 libkrb5support0 libk5crypto3 libkrb5-3 libgssapi-krb5-2 libsasl2-modules-db libsasl2-2 libldap-2.4-2 liblockfile-bin liblockfile1 libmagic1 libsqlite3-0 libxml2 perl-modules perl libpython2.7-minimal python2.7-minimal python-minimal mime-support libexpat1 libpython2.7-stdlib python2.7 libpython-stdlib python libatm1 libisc-export95 libdns-export100 libisccfg-export90 libirs-export91 libpq5 sgml-base iproute2 ifupdown isc-dhcp-common isc-dhcp-client libxtables10 logrotate netbase exim4-config exim4-base exim4-daemon-light bsd-mailx exim4 file krb5-locales locales ucf libalgorithm-c3-perl libarchive-extract-perl libcgi-pm-perl libfcgi-perl libcgi-fast-perl libclass-c3-perl libclass-c3-xs-perl libcpan-meta-perl libparams-util-perl libsub-install-perl libdata-optlist-perl libmro-compat-perl libsub-exporter-perl libdata-section-perl liblog-message-perl liblog-message-simple-perl libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libpackage-constants-perl libpod-latex-perl libregexp-common-perl libpod-readme-perl libsasl2-modules libtext-template-perl libsoftware-license-perl libterm-ui-perl libtext-soundex-perl lsb-release openssl postgresql-client-common postgresql-client-9.4 ssl-cert postgresql-common postgresql-9.4 postgresql psmisc rename xml-core E: There are problems and -y was used without --force-yes 0m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/shm'] 0m6.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/shm'] 0m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/console'] 0m6.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/console'] 0m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/ptmx'] 0m6.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/ptmx'] 0m6.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/pts'] 0m6.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/dev/pts'] 0m6.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/proc'] 0m6.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh/proc'] 0m6.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh'] 0m6.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdnnrdxuh'] 0m6.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpdnnrdxuh 0m6.3s ERROR: piuparts run ends. ret=1 End: 2023-01-20 17:48:10 GMT