Start: 2018-01-28 01:04:51 UTC [squeeze] Package: bioperl-run Priority: optional Section: science Installed-Size: 2136 Maintainer: Debian Med Packaging Team Architecture: all Version: 1.6.1-1 Depends: bioperl (>= 1.6.0) Recommends: libalgorithm-diff-perl, libipc-run-perl, libio-string-perl, libxml-twig-perl Suggests: amap-align, emboss, hmmer, wise, molphy, phylip, clustalw, sim4, t-coffee, blast2, exonerate Filename: pool/main/b/bioperl-run/bioperl-run_1.6.1-1_all.deb Size: 694910 MD5sum: 4c2a83ba5734c8141dc4cdab9e5449ff SHA1: 7498f217e2ef6e8c8afde89a7c1ddd91a286c9f5 SHA256: 41ce19fd12dd74cabfe5a05d68e500592fd2c667b5f10c7bd186ac3ab8ca27e0 Description: Wrapper modules for BioPerl Contains modules that provide a Perl interface to various bioinformatics applications to allow them to be used with common BioPerl objects. . Not all the wrappable applications are packaged in Debian. The ones that are are "Suggested" by this package. Homepage: http://www.bioperl.org/wiki/Run_package Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program [wheezy-lts] Package: bioperl-run Version: 1.6.9-1 Installed-Size: 144 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl, bioperl (>= 1.6.0), libbio-perl-run-perl (= 1.6.9-1) Recommends: amap-align, bedtools, blast2, bowtie, bwa, clustalw, emboss, exonerate, hmmer, infernal, kalign, maq, mafft, muscle, phyml, primer3, probcons, samtools, sim4, t-coffee, tigr-glimmer, wise Suggests: gmap, paml, molphy, phylip, ensembl Description: BioPerl wrappers: scripts Homepage: http://www.bioperl.org/wiki/Run_package Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.6.9-1_all.deb Size: 46294 MD5sum: e4e1eab03f0dfd9ddebcac2b1e6aa767 SHA1: 30dd4a966b8be7143e4e550579bdb2db5eabca04 SHA256: 687f553a99475cdcdff833f3600c1899353541832cba9daf513f2b7fa2d0ce29 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python2.7/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge -i /etc/shells --no-check-valid-until --scriptsdir /etc/piuparts/scripts-wheezy --warn-on-debsums-errors --warn-on-install-over-symlink --mirror 'http://mirror.bm.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz -d squeeze -d wheezy-lts -B reference-chroot-metadata.dat --apt bioperl-run=1.6.9-1 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 0.84~201801121530~0.83-4-g6e16ed9a starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge -i /etc/shells --no-check-valid-until --scriptsdir /etc/piuparts/scripts-wheezy --warn-on-debsums-errors --warn-on-install-over-symlink --mirror 'http://mirror.bm.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz -d squeeze -d wheezy-lts -B reference-chroot-metadata.dat --apt bioperl-run=1.6.9-1 0m0.0s INFO: Running on: Linux piu-slave-bm-a 4.9.0-5-amd64 #1 SMP Debian 4.9.65-3+deb9u2 (2018-01-04) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpq9OneJ 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpq9OneJ 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz'] 0m2.7s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz'] 0m2.7s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/proc'] 0m2.8s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/proc'] 0m2.8s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/pts'] 0m2.8s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/pts'] 0m2.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/ptmx'] 0m2.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/ptmx'] 0m2.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/console'] 0m2.9s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/console'] 0m2.9s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/shm'] 0m2.9s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/shm'] 0m2.9s DEBUG: sources.list: deb http://archive.debian.org/debian squeeze main 0m2.9s DEBUG: Created policy-rc.d and chmodded it. 0m3.0s DEBUG: Created resolv.conf. 0m3.0s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpq9OneJ/tmp/scripts/ 0m3.0s DEBUG: Copying scriptsdir /etc/piuparts/scripts-wheezy to /srv/piuparts.debian.org/tmp/tmpq9OneJ/tmp/scripts/ 0m3.0s INFO: Running scripts post_chroot_unpack 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'update'] 0m5.8s DUMP: Get:1 http://archive.debian.org squeeze Release.gpg [1655 B] Ign http://archive.debian.org/debian/ squeeze/main Translation-en Get:2 http://archive.debian.org squeeze Release [96.0 kB] Get:3 http://archive.debian.org squeeze/main amd64 Packages [8370 kB] Fetched 8468 kB in 1s (5145 kB/s) Reading package lists... 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'update'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-yf', 'dist-upgrade'] 0m6.2s DUMP: Reading package lists... Building dependency tree... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-yf', 'dist-upgrade'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.6s DUMP: 6a0e4d3b374fdc6be02fc5f39fbf3166 - 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.6s INFO: Running scripts post_setup 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_dummy_users'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_dummy_users'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_experimental'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_experimental'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_forbid_home'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_forbid_home'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_minimize'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_minimize'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_wheezy-fake-essential'] 0m9.9s DUMP: *** Adding fake essential packages *** Reading package lists... Building dependency tree... Suggested packages: perl-modules The following NEW packages will be installed: adduser ucf 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 320 kB of archives. After this operation, 1532 kB of additional disk space will be used. Get:1 http://archive.debian.org/debian/ squeeze/main adduser all 3.112+nmu2 [250 kB] Get:2 http://archive.debian.org/debian/ squeeze/main ucf all 3.0025+nmu1 [69.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 320 kB in 0s (2537 kB/s) Selecting previously deselected package adduser. (Reading database ... 6138 files and directories currently installed.) Unpacking adduser (from .../adduser_3.112+nmu2_all.deb) ... Selecting previously deselected package ucf. Unpacking ucf (from .../ucf_3.0025+nmu1_all.deb) ... Moving old data out of the way Setting up adduser (3.112+nmu2) ... Setting up ucf (3.0025+nmu1) ... 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_wheezy-fake-essential'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_zz_backports'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_setup_zz_backports'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m9.9s DUMP: install ok installed adduser 3.112+nmu2 install ok installed apt 0.8.10.3+squeeze1 install ok installed base-files 6.0squeeze10 install ok installed base-passwd 3.5.22 install ok installed bash 4.1-3 install ok installed bsdutils 1:2.17.2-9 install ok installed coreutils 8.5-1 install ok installed dash 0.5.5.1-7.4 install ok installed debconf 1.5.36.1 install ok installed debconf-i18n 1.5.36.1 install ok installed debian-archive-keyring 2010.08.28+squeeze1 install ok installed debianutils 3.4 install ok installed diffutils 1:3.0-1 install ok installed dpkg 1.15.11 install ok installed e2fslibs 1.41.12-4stable1 install ok installed e2fsprogs 1.41.12-4stable1 install ok installed findutils 4.4.2-1+b1 install ok installed gcc-4.4-base 4.4.5-8 install ok installed gnupg 1.4.10-4+squeeze4 install ok installed gpgv 1.4.10-4+squeeze4 install ok installed grep 2.6.3-3+squeeze1 install ok installed gzip 1.3.12-9+squeeze1 install ok installed hostname 3.04 install ok installed initscripts 2.88dsf-13.1+squeeze1 install ok installed insserv 1.14.0-2 install ok installed libacl1 2.2.49-4 install ok installed libattr1 1:2.4.44-2 install ok installed libblkid1 2.17.2-9 install ok installed libbz2-1.0 1.0.5-6+squeeze1 install ok installed libc-bin 2.11.3-4 install ok installed libc6 2.11.3-4 install ok installed libcomerr2 1.41.12-4stable1 install ok installed libdb4.8 4.8.30-2 install ok installed libgcc1 1:4.4.5-8 install ok installed liblocale-gettext-perl 1.05-6 install ok installed liblzma2 5.0.0-2 install ok installed libncurses5 5.7+20100313-5 install ok installed libpam-modules 1.1.1-6.1+squeeze1 install ok installed libpam-runtime 1.1.1-6.1+squeeze1 install ok installed libpam0g 1.1.1-6.1+squeeze1 install ok installed libreadline6 6.1-3 install ok installed libselinux1 2.0.96-1 install ok installed libsepol1 2.0.41-1 install ok installed libslang2 2.2.2-4 install ok installed libss2 1.41.12-4stable1 install ok installed libstdc++6 4.4.5-8 install ok installed libtext-charwidth-perl 0.04-6 install ok installed libtext-iconv-perl 1.7-2 install ok installed libtext-wrapi18n-perl 0.06-7 install ok installed libusb-0.1-4 2:0.1.12-16 install ok installed libuuid1 2.17.2-9 install ok installed login 1:4.1.4.2+svn3283-2+squeeze1 install ok installed lsb-base 3.2-23.2squeeze1 install ok installed mawk 1.3.3-15 install ok installed mount 2.17.2-9 install ok installed ncurses-base 5.7+20100313-5 install ok installed ncurses-bin 5.7+20100313-5 install ok installed passwd 1:4.1.4.2+svn3283-2+squeeze1 install ok installed perl-base 5.10.1-17squeeze6 install ok installed readline-common 6.1-3 install ok installed sed 4.2.1-7 install ok installed sensible-utils 0.0.4 install ok installed sysv-rc 2.88dsf-13.1+squeeze1 install ok installed sysvinit 2.88dsf-13.1+squeeze1 install ok installed sysvinit-utils 2.88dsf-13.1+squeeze1 install ok installed tar 1.23-3 install ok installed tzdata 2014e-0squeeze1 install ok installed ucf 3.0025+nmu1 install ok installed util-linux 2.17.2-9 install ok installed xz-utils 5.0.0-2 install ok installed zlib1g 1:1.2.3.4.dfsg-3 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m9.9s DEBUG: Loading chroot meta data from reference-chroot-metadata.dat 0m10.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m12.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m12.3s INFO: Running scripts is_testable 0m12.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/is_testable_uninstallable'] 0m12.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/is_testable_uninstallable'] 0m12.3s INFO: Running scripts pre_test 0m12.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_test_exceptions'] 0m12.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_test_exceptions'] 0m12.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_test_root_password'] 0m12.3s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m12.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_test_root_password'] 0m12.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'show', 'bioperl-run'] 0m12.5s DUMP: Package: bioperl-run Priority: optional Section: science Installed-Size: 2136 Maintainer: Debian Med Packaging Team Architecture: all Version: 1.6.1-1 Depends: bioperl (>= 1.6.0) Recommends: libalgorithm-diff-perl, libipc-run-perl, libio-string-perl, libxml-twig-perl Suggests: amap-align, emboss, hmmer, wise, molphy, phylip, clustalw, sim4, t-coffee, blast2, exonerate Filename: pool/main/b/bioperl-run/bioperl-run_1.6.1-1_all.deb Size: 694910 MD5sum: 4c2a83ba5734c8141dc4cdab9e5449ff SHA1: 7498f217e2ef6e8c8afde89a7c1ddd91a286c9f5 SHA256: 41ce19fd12dd74cabfe5a05d68e500592fd2c667b5f10c7bd186ac3ab8ca27e0 Description: Wrapper modules for BioPerl Contains modules that provide a Perl interface to various bioinformatics applications to allow them to be used with common BioPerl objects. . Not all the wrappable applications are packaged in Debian. The ones that are are "Suggested" by this package. Homepage: http://www.bioperl.org/wiki/Run_package Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program 0m12.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'show', 'bioperl-run'] 0m12.5s INFO: apt-cache knows about the following packages: bioperl-run 0m12.5s INFO: Running scripts pre_install 0m12.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_database-server'] 0m12.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_database-server'] 0m12.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_exceptions'] 0m12.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_exceptions'] 0m12.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_extras'] 0m12.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_extras'] 0m12.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture'] 0m12.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture'] 0m12.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m12.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m12.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy'] 0m12.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://archive.debian.org/debian/ squeeze/main amd64 Packages release v=6.0.10,o=Debian,a=oldoldstable,n=squeeze,l=Debian,c=main origin archive.debian.org Pinned packages: 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy'] 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy', 'bioperl-run'] 0m12.7s DUMP: bioperl-run: Installed: (none) Candidate: 1.6.1-1 Version table: 1.6.1-1 0 500 http://archive.debian.org/debian/ squeeze/main amd64 Packages 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy', 'bioperl-run'] 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-y', 'install', 'bioperl-run'] 0m16.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bioperl libdata-stag-perl libdb4.7 libgdbm3 libio-string-perl perl perl-modules Suggested packages: libmath-random-perl libxml-sax-expatxs-perl amap-align emboss hmmer wise molphy phylip clustalw sim4 t-coffee blast2 exonerate perl-doc libterm-readline-gnu-perl libterm-readline-perl-perl make Recommended packages: libace-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgraph-perl libgraphviz-perl libhtml-parser-perl liblist-moreutils-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libstorable-perl libsvg-perl libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-libxml-perl libwww-perl libalgorithm-diff-perl libipc-run-perl perl-tk libgd-gd2-perl libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl netbase The following NEW packages will be installed: bioperl bioperl-run libdata-stag-perl libdb4.7 libgdbm3 libio-string-perl perl perl-modules 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 16.2 MB of archives. After this operation, 59.9 MB of additional disk space will be used. Get:1 http://archive.debian.org/debian/ squeeze/main libgdbm3 amd64 1.8.3-9 [46.2 kB] Get:2 http://archive.debian.org/debian/ squeeze/main libdb4.7 amd64 4.7.25-9 [662 kB] Get:3 http://archive.debian.org/debian/ squeeze/main perl-modules all 5.10.1-17squeeze6 [3482 kB] Get:4 http://archive.debian.org/debian/ squeeze/main perl amd64 5.10.1-17squeeze6 [4462 kB] Get:5 http://archive.debian.org/debian/ squeeze/main libio-string-perl all 1.08-2 [12.0 kB] Get:6 http://archive.debian.org/debian/ squeeze/main libdata-stag-perl all 0.11-2 [509 kB] Get:7 http://archive.debian.org/debian/ squeeze/main bioperl all 1.6.1-2 [6367 kB] Get:8 http://archive.debian.org/debian/ squeeze/main bioperl-run all 1.6.1-1 [695 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 16.2 MB in 0s (16.6 MB/s) Selecting previously deselected package libgdbm3. (Reading database ... 6261 files and directories currently installed.) Unpacking libgdbm3 (from .../libgdbm3_1.8.3-9_amd64.deb) ... Selecting previously deselected package libdb4.7. Unpacking libdb4.7 (from .../libdb4.7_4.7.25-9_amd64.deb) ... Selecting previously deselected package perl-modules. Unpacking perl-modules (from .../perl-modules_5.10.1-17squeeze6_all.deb) ... Selecting previously deselected package perl. Unpacking perl (from .../perl_5.10.1-17squeeze6_amd64.deb) ... Selecting previously deselected package libio-string-perl. Unpacking libio-string-perl (from .../libio-string-perl_1.08-2_all.deb) ... Selecting previously deselected package libdata-stag-perl. Unpacking libdata-stag-perl (from .../libdata-stag-perl_0.11-2_all.deb) ... Selecting previously deselected package bioperl. Unpacking bioperl (from .../bioperl_1.6.1-2_all.deb) ... Selecting previously deselected package bioperl-run. Unpacking bioperl-run (from .../bioperl-run_1.6.1-1_all.deb) ... Setting up libgdbm3 (1.8.3-9) ... Setting up libdb4.7 (4.7.25-9) ... Setting up perl-modules (5.10.1-17squeeze6) ... Setting up perl (5.10.1-17squeeze6) ... update-alternatives: using /usr/bin/prename to provide /usr/bin/rename (rename) in auto mode. Setting up libio-string-perl (1.08-2) ... Setting up libdata-stag-perl (0.11-2) ... Setting up bioperl (1.6.1-2) ... Setting up bioperl-run (1.6.1-1) ... 0m16.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-y', 'install', 'bioperl-run'] 0m16.3s INFO: Running scripts post_install 0m16.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_install_exceptions'] 0m16.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_install_exceptions'] 0m16.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m18.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m18.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpq9OneJ to wheezy-lts 0m18.0s DEBUG: sources.list: deb http://mirror.bm.debian.org/debian/ wheezy main deb http://security.debian.org wheezy/updates main 0m18.0s INFO: Running scripts pre_distupgrade 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_exceptions'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_exceptions'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m18.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m18.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_wheezy'] 0m18.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_wheezy'] 0m18.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m18.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m18.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'update'] 0m20.5s DUMP: Get:1 http://mirror.bm.debian.org wheezy Release.gpg [2373 B] Ign http://mirror.bm.debian.org/debian/ wheezy/main Translation-en Get:2 http://mirror.bm.debian.org wheezy Release [191 kB] Get:3 http://mirror.bm.debian.org wheezy/main amd64 Packages [7634 kB] Get:4 http://security.debian.org wheezy/updates Release.gpg [1601 B] Ign http://security.debian.org/ wheezy/updates/main Translation-en Get:5 http://security.debian.org wheezy/updates Release [39.0 kB] Get:6 http://security.debian.org wheezy/updates/main amd64 Packages [764 kB] Fetched 8632 kB in 1s (7826 kB/s) Reading package lists... W: There is no public key available for the following key IDs: 7638D0442B90D010 W: There is no public key available for the following key IDs: 9D6D8F6BC857C906 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'update'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-yf', 'dist-upgrade'] 0m50.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: gcc-4.7-base libapt-pkg4.12 libbio-perl-perl libbio-perl-run-perl libclass-isa-perl libdb5.1 liblzma5 libmount1 libpam-modules-bin libsemanage-common libsemanage1 libswitch-perl libtinfo5 libustr-1.0-1 multiarch-support The following packages will be upgraded: adduser apt base-files base-passwd bash bioperl bioperl-run bsdutils coreutils dash debconf debconf-i18n debian-archive-keyring debianutils diffutils dpkg e2fslibs e2fsprogs findutils gcc-4.4-base gnupg gpgv grep gzip hostname initscripts insserv libacl1 libattr1 libblkid1 libbz2-1.0 libc-bin libc6 libcomerr2 libgcc1 libgdbm3 liblocale-gettext-perl libncurses5 libpam-modules libpam-runtime libpam0g libreadline6 libselinux1 libsepol1 libslang2 libss2 libstdc++6 libtext-charwidth-perl libtext-iconv-perl libusb-0.1-4 libuuid1 login lsb-base mawk mount ncurses-base ncurses-bin passwd perl perl-base perl-modules readline-common sed sensible-utils sysv-rc sysvinit sysvinit-utils tar tzdata ucf util-linux xz-utils zlib1g 73 upgraded, 15 newly installed, 0 to remove and 0 not upgraded. Need to get 51.7 MB of archives. After this operation, 7704 kB disk space will be freed. Get:1 http://mirror.bm.debian.org/debian/ wheezy/main debianutils amd64 4.3.2 [78.9 kB] Get:2 http://mirror.bm.debian.org/debian/ wheezy/main gcc-4.7-base amd64 4.7.2-5 [144 kB] Get:3 http://mirror.bm.debian.org/debian/ wheezy/main libgcc1 amd64 1:4.7.2-5 [43.1 kB] Get:4 http://mirror.bm.debian.org/debian/ wheezy/main libsemanage-common all 2.1.6-6 [23.2 kB] Get:5 http://mirror.bm.debian.org/debian/ wheezy/main libsepol1 amd64 2.1.4-3 [135 kB] Get:6 http://mirror.bm.debian.org/debian/ wheezy/main libustr-1.0-1 amd64 1.0.4-3 [92.5 kB] Get:7 http://mirror.bm.debian.org/debian/ wheezy/main libbz2-1.0 amd64 1.0.6-4 [46.5 kB] Get:8 http://mirror.bm.debian.org/debian/ wheezy/main libselinux1 amd64 2.1.9-5 [90.6 kB] Get:9 http://mirror.bm.debian.org/debian/ wheezy/main libsemanage1 amd64 2.1.6-6 [102 kB] Get:10 http://mirror.bm.debian.org/debian/ wheezy/main debconf all 1.5.49 [171 kB] Get:11 http://mirror.bm.debian.org/debian/ wheezy/main libpam0g amd64 1.1.3-7.1 [128 kB] Get:12 http://mirror.bm.debian.org/debian/ wheezy/main libpam-modules-bin amd64 1.1.3-7.1 [113 kB] Get:13 http://mirror.bm.debian.org/debian/ wheezy/main libpam-modules amd64 1.1.3-7.1 [348 kB] Get:14 http://security.debian.org/ wheezy/updates/main sensible-utils all 0.0.7+deb7u1 [9000 B] Get:15 http://security.debian.org/ wheezy/updates/main libc-bin amd64 2.13-38+deb7u12 [1275 kB] Get:16 http://mirror.bm.debian.org/debian/ wheezy/main libuuid1 amd64 2.20.1-5.3 [57.1 kB] Get:17 http://mirror.bm.debian.org/debian/ wheezy/main libblkid1 amd64 2.20.1-5.3 [120 kB] Get:18 http://mirror.bm.debian.org/debian/ wheezy/main libslang2 amd64 2.2.4-15 [551 kB] Get:19 http://mirror.bm.debian.org/debian/ wheezy/main libtinfo5 amd64 5.9-10 [275 kB] Get:20 http://mirror.bm.debian.org/debian/ wheezy/main lsb-base all 4.1+Debian8+deb7u1 [26.8 kB] Get:21 http://mirror.bm.debian.org/debian/ wheezy/main liblzma5 amd64 5.1.1alpha+20120614-2 [202 kB] Get:22 http://mirror.bm.debian.org/debian/ wheezy/main dpkg amd64 1.16.18 [2665 kB] Get:23 http://mirror.bm.debian.org/debian/ wheezy/main util-linux amd64 2.20.1-5.3 [659 kB] Get:24 http://mirror.bm.debian.org/debian/ wheezy/main insserv amd64 1.14.0-5 [64.8 kB] Get:25 http://mirror.bm.debian.org/debian/ wheezy/main sysvinit-utils amd64 2.88dsf-41+deb7u1 [100 kB] Get:26 http://mirror.bm.debian.org/debian/ wheezy/main sysv-rc all 2.88dsf-41+deb7u1 [81.8 kB] Get:27 http://mirror.bm.debian.org/debian/ wheezy/main libmount1 amd64 2.20.1-5.3 [120 kB] Get:28 http://mirror.bm.debian.org/debian/ wheezy/main mount amd64 2.20.1-5.3 [213 kB] Get:29 http://mirror.bm.debian.org/debian/ wheezy/main libattr1 amd64 1:2.4.46-8 [19.8 kB] Get:30 http://mirror.bm.debian.org/debian/ wheezy/main libacl1 amd64 2.2.51-8 [30.1 kB] Get:31 http://mirror.bm.debian.org/debian/ wheezy/main coreutils amd64 8.13-3.5 [5628 kB] Get:32 http://security.debian.org/ wheezy/updates/main libc6 amd64 2.13-38+deb7u12 [4226 kB] Get:33 http://security.debian.org/ wheezy/updates/main multiarch-support amd64 2.13-38+deb7u12 [152 kB] Get:34 http://security.debian.org/ wheezy/updates/main libdb5.1 amd64 5.1.29-5+deb7u1 [723 kB] Get:35 http://security.debian.org/ wheezy/updates/main passwd amd64 1:4.1.5.1-1+deb7u1 [1262 kB] Get:36 http://mirror.bm.debian.org/debian/ wheezy/main initscripts amd64 2.88dsf-41+deb7u1 [91.8 kB] Get:37 http://mirror.bm.debian.org/debian/ wheezy/main base-files amd64 7.1wheezy11 [67.1 kB] Get:38 http://mirror.bm.debian.org/debian/ wheezy/main dash amd64 0.5.7-3 [113 kB] Get:39 http://mirror.bm.debian.org/debian/ wheezy/main diffutils amd64 1:3.2-6 [366 kB] Get:40 http://mirror.bm.debian.org/debian/ wheezy/main libcomerr2 amd64 1.42.5-1.1+deb7u1 [56.1 kB] Get:41 http://mirror.bm.debian.org/debian/ wheezy/main e2fslibs amd64 1.42.5-1.1+deb7u1 [197 kB] Get:42 http://mirror.bm.debian.org/debian/ wheezy/main e2fsprogs amd64 1.42.5-1.1+deb7u1 [979 kB] Get:43 http://mirror.bm.debian.org/debian/ wheezy/main findutils amd64 4.4.2-4 [694 kB] Get:44 http://security.debian.org/ wheezy/updates/main tzdata all 2017c-0+deb7u1 [493 kB] Get:45 http://mirror.bm.debian.org/debian/ wheezy/main grep amd64 2.12-2 [454 kB] Get:46 http://security.debian.org/ wheezy/updates/main bash amd64 4.2+dfsg-0.1+deb7u4 [1499 kB] Get:47 http://mirror.bm.debian.org/debian/ wheezy/main gzip amd64 1.5-1.1 [119 kB] Get:48 http://mirror.bm.debian.org/debian/ wheezy/main hostname amd64 3.11 [15.0 kB] Get:49 http://mirror.bm.debian.org/debian/ wheezy/main ncurses-bin amd64 5.9-10 [335 kB] Get:50 http://mirror.bm.debian.org/debian/ wheezy/main libswitch-perl all 2.16-2 [21.0 kB] Get:51 http://mirror.bm.debian.org/debian/ wheezy/main libclass-isa-perl all 0.36-3 [12.3 kB] Get:52 http://mirror.bm.debian.org/debian/ wheezy/main libgdbm3 amd64 1.8.3-11 [46.9 kB] Get:53 http://mirror.bm.debian.org/debian/ wheezy/main zlib1g amd64 1:1.2.7.dfsg-13 [87.4 kB] Get:54 http://mirror.bm.debian.org/debian/ wheezy/main libtext-charwidth-perl amd64 0.04-7+b1 [11.2 kB] Get:55 http://mirror.bm.debian.org/debian/ wheezy/main libtext-iconv-perl amd64 1.7-5 [17.6 kB] Get:56 http://mirror.bm.debian.org/debian/ wheezy/main liblocale-gettext-perl amd64 1.05-7+b1 [20.4 kB] Get:57 http://mirror.bm.debian.org/debian/ wheezy/main sed amd64 4.2.1-10 [251 kB] Get:58 http://mirror.bm.debian.org/debian/ wheezy/main sysvinit amd64 2.88dsf-41+deb7u1 [133 kB] Get:59 http://security.debian.org/ wheezy/updates/main login amd64 1:4.1.5.1-1+deb7u1 [984 kB] Get:60 http://mirror.bm.debian.org/debian/ wheezy/main base-passwd amd64 3.5.26 [46.3 kB] Get:61 http://mirror.bm.debian.org/debian/ wheezy/main bsdutils amd64 1:2.20.1-5.3 [85.5 kB] Get:62 http://mirror.bm.debian.org/debian/ wheezy/main ncurses-base all 5.9-10 [198 kB] Get:63 http://mirror.bm.debian.org/debian/ wheezy/main libstdc++6 amd64 4.7.2-5 [332 kB] Get:64 http://mirror.bm.debian.org/debian/ wheezy/main debian-archive-keyring all 2014.3~deb7u1 [60.7 kB] Get:65 http://mirror.bm.debian.org/debian/ wheezy/main readline-common all 6.2+dfsg-0.1 [31.9 kB] Get:66 http://mirror.bm.debian.org/debian/ wheezy/main libreadline6 amd64 6.2+dfsg-0.1 [166 kB] Get:67 http://mirror.bm.debian.org/debian/ wheezy/main libusb-0.1-4 amd64 2:0.1.12-20+nmu1 [23.1 kB] Get:68 http://mirror.bm.debian.org/debian/ wheezy/main libapt-pkg4.12 amd64 0.9.7.9+deb7u7 [891 kB] Get:69 http://security.debian.org/ wheezy/updates/main perl-modules all 5.14.2-21+deb7u5 [3441 kB] Get:70 http://mirror.bm.debian.org/debian/ wheezy/main apt amd64 0.9.7.9+deb7u7 [1262 kB] Get:71 http://mirror.bm.debian.org/debian/ wheezy/main libncurses5 amd64 5.9-10 [113 kB] Get:72 http://mirror.bm.debian.org/debian/ wheezy/main libss2 amd64 1.42.5-1.1+deb7u1 [61.4 kB] Get:73 http://mirror.bm.debian.org/debian/ wheezy/main mawk amd64 1.3.3-17 [90.8 kB] Get:74 http://mirror.bm.debian.org/debian/ wheezy/main libpam-runtime all 1.1.3-7.1 [228 kB] Get:75 http://mirror.bm.debian.org/debian/ wheezy/main xz-utils amd64 5.1.1alpha+20120614-2 [237 kB] Get:76 http://security.debian.org/ wheezy/updates/main perl amd64 5.14.2-21+deb7u5 [4434 kB] Get:77 http://mirror.bm.debian.org/debian/ wheezy/main adduser all 3.113+nmu3 [264 kB] Get:78 http://mirror.bm.debian.org/debian/ wheezy/main debconf-i18n all 1.5.49 [237 kB] Get:79 http://mirror.bm.debian.org/debian/ wheezy/main ucf all 3.0025+nmu3 [70.8 kB] Get:80 http://mirror.bm.debian.org/debian/ wheezy/main bioperl all 1.6.901-3 [467 kB] Get:81 http://mirror.bm.debian.org/debian/ wheezy/main libbio-perl-perl all 1.6.901-3 [6143 kB] Get:82 http://security.debian.org/ wheezy/updates/main perl-base amd64 5.14.2-21+deb7u5 [1534 kB] Get:83 http://security.debian.org/ wheezy/updates/main tar amd64 1.26+dfsg-0.1+deb7u1 [984 kB] Get:84 http://security.debian.org/ wheezy/updates/main gpgv amd64 1.4.12-7+deb7u9 [229 kB] Get:85 http://security.debian.org/ wheezy/updates/main gnupg amd64 1.4.12-7+deb7u9 [1954 kB] Get:86 http://mirror.bm.debian.org/debian/ wheezy/main bioperl-run all 1.6.9-1 [46.3 kB] Get:87 http://mirror.bm.debian.org/debian/ wheezy/main libbio-perl-run-perl all 1.6.9-1 [883 kB] Get:88 http://mirror.bm.debian.org/debian/ wheezy/main gcc-4.4-base amd64 4.4.7-2 [127 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 51.7 MB in 0s (67.3 MB/s) (Reading database ... 10048 files and directories currently installed.) Preparing to replace sensible-utils 0.0.4 (using .../sensible-utils_0.0.7+deb7u1_all.deb) ... Unpacking replacement sensible-utils ... Setting up sensible-utils (0.0.7+deb7u1) ... (Reading database ... 10060 files and directories currently installed.) Preparing to replace debianutils 3.4 (using .../debianutils_4.3.2_amd64.deb) ... Unpacking replacement debianutils ... Setting up debianutils (4.3.2) ... (Reading database ... 10086 files and directories currently installed.) Preparing to replace libc-bin 2.11.3-4 (using .../libc-bin_2.13-38+deb7u12_amd64.deb) ... Unpacking replacement libc-bin ... Setting up libc-bin (2.13-38+deb7u12) ... Installing new version of config file /etc/bindresvport.blacklist ... (Reading database ... 10103 files and directories currently installed.) Preparing to replace libc6 2.11.3-4 (using .../libc6_2.13-38+deb7u12_amd64.deb) ... Checking for services that may need to be restarted... Checking init scripts... Unpacking replacement libc6 ... Setting up libc6 (2.13-38+deb7u12) ... Checking for services that may need to be restarted... Checking init scripts... Nothing to restart. Selecting previously deselected package gcc-4.7-base. (Reading database ... 10108 files and directories currently installed.) Unpacking gcc-4.7-base (from .../gcc-4.7-base_4.7.2-5_amd64.deb) ... Setting up gcc-4.7-base (4.7.2-5) ... Selecting previously deselected package multiarch-support. (Reading database ... 10115 files and directories currently installed.) Unpacking multiarch-support (from .../multiarch-support_2.13-38+deb7u12_amd64.deb) ... Setting up multiarch-support (2.13-38+deb7u12) ... (Reading database ... 10119 files and directories currently installed.) Preparing to replace libgcc1 1:4.4.5-8 (using .../libgcc1_1%3a4.7.2-5_amd64.deb) ... Unpacking replacement libgcc1 ... Setting up libgcc1 (1:4.7.2-5) ... Selecting previously deselected package libsemanage-common. (Reading database ... 10119 files and directories currently installed.) Unpacking libsemanage-common (from .../libsemanage-common_2.1.6-6_all.deb) ... Setting up libsemanage-common (2.1.6-6) ... (Reading database ... 10126 files and directories currently installed.) Preparing to replace libsepol1 2.0.41-1 (using .../libsepol1_2.1.4-3_amd64.deb) ... Unpacking replacement libsepol1 ... Setting up libsepol1 (2.1.4-3) ... Selecting previously deselected package libustr-1.0-1. (Reading database ... 10126 files and directories currently installed.) Unpacking libustr-1.0-1 (from .../libustr-1.0-1_1.0.4-3_amd64.deb) ... Setting up libustr-1.0-1 (1.0.4-3) ... (Reading database ... 10137 files and directories currently installed.) Preparing to replace libbz2-1.0 1.0.5-6+squeeze1 (using .../libbz2-1.0_1.0.6-4_amd64.deb) ... Unpacking replacement libbz2-1.0 ... Setting up libbz2-1.0 (1.0.6-4) ... (Reading database ... 10137 files and directories currently installed.) Preparing to replace libselinux1 2.0.96-1 (using .../libselinux1_2.1.9-5_amd64.deb) ... Unpacking replacement libselinux1 ... Setting up libselinux1 (2.1.9-5) ... Selecting previously deselected package libsemanage1. (Reading database ... 10137 files and directories currently installed.) Unpacking libsemanage1 (from .../libsemanage1_2.1.6-6_amd64.deb) ... Setting up libsemanage1 (2.1.6-6) ... (Reading database ... 10142 files and directories currently installed.) Preparing to replace debconf 1.5.36.1 (using .../debconf_1.5.49_all.deb) ... Unpacking replacement debconf ... Setting up debconf (1.5.49) ... (Reading database ... 10145 files and directories currently installed.) Preparing to replace libpam0g 1.1.1-6.1+squeeze1 (using .../libpam0g_1.1.3-7.1_amd64.deb) ... Unpacking replacement libpam0g ... Setting up libpam0g (1.1.3-7.1) ... Checking for services that may need to be restarted...Checking init scripts... Nothing to restart. Selecting previously deselected package libdb5.1. (Reading database ... 10145 files and directories currently installed.) Unpacking libdb5.1 (from .../libdb5.1_5.1.29-5+deb7u1_amd64.deb) ... Setting up libdb5.1 (5.1.29-5+deb7u1) ... Selecting previously deselected package libpam-modules-bin. (Reading database ... 10151 files and directories currently installed.) Unpacking libpam-modules-bin (from .../libpam-modules-bin_1.1.3-7.1_amd64.deb) ... Replacing files in old package libpam-modules ... Setting up libpam-modules-bin (1.1.3-7.1) ... (Reading database ... 10157 files and directories currently installed.) Preparing to replace libpam-modules 1.1.1-6.1+squeeze1 (using .../libpam-modules_1.1.3-7.1_amd64.deb) ... Unpacking replacement libpam-modules ... Setting up libpam-modules (1.1.3-7.1) ... Installing new version of config file /etc/security/group.conf ... (Reading database ... 10156 files and directories currently installed.) Preparing to replace passwd 1:4.1.4.2+svn3283-2+squeeze1 (using .../passwd_1%3a4.1.5.1-1+deb7u1_amd64.deb) ... Unpacking replacement passwd ... Setting up passwd (1:4.1.5.1-1+deb7u1) ... (Reading database ... 10176 files and directories currently installed.) Preparing to replace libuuid1 2.17.2-9 (using .../libuuid1_2.20.1-5.3_amd64.deb) ... Unpacking replacement libuuid1 ... Setting up libuuid1 (2.20.1-5.3) ... (Reading database ... 10177 files and directories currently installed.) Preparing to replace libblkid1 2.17.2-9 (using .../libblkid1_2.20.1-5.3_amd64.deb) ... Unpacking replacement libblkid1 ... Setting up libblkid1 (2.20.1-5.3) ... (Reading database ... 10177 files and directories currently installed.) Preparing to replace libslang2 2.2.2-4 (using .../libslang2_2.2.4-15_amd64.deb) ... Unpacking replacement libslang2 ... Setting up libslang2 (2.2.4-15) ... Selecting previously deselected package libtinfo5. (Reading database ... 10175 files and directories currently installed.) Unpacking libtinfo5 (from .../libtinfo5_5.9-10_amd64.deb) ... Setting up libtinfo5 (5.9-10) ... (Reading database ... 10184 files and directories currently installed.) Preparing to replace lsb-base 3.2-23.2squeeze1 (using .../lsb-base_4.1+Debian8+deb7u1_all.deb) ... Unpacking replacement lsb-base ... Setting up lsb-base (4.1+Debian8+deb7u1) ... (Reading database ... 10186 files and directories currently installed.) Preparing to replace tzdata 2014e-0squeeze1 (using .../tzdata_2017c-0+deb7u1_all.deb) ... Unpacking replacement tzdata ... Setting up tzdata (2017c-0+deb7u1) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Jan 28 01:05:30 UTC 2018. Universal Time is now: Sun Jan 28 01:05:30 UTC 2018. Run 'dpkg-reconfigure tzdata' if you wish to change it. Selecting previously deselected package liblzma5. (Reading database ... 10225 files and directories currently installed.) Unpacking liblzma5 (from .../liblzma5_5.1.1alpha+20120614-2_amd64.deb) ... Setting up liblzma5 (5.1.1alpha+20120614-2) ... (Reading database ... 10234 files and directories currently installed.) Preparing to replace dpkg 1.15.11 (using .../dpkg_1.16.18_amd64.deb) ... Unpacking replacement dpkg ... Setting up dpkg (1.16.18) ... (Reading database ... 10255 files and directories currently installed.) Preparing to replace util-linux 2.17.2-9 (using .../util-linux_2.20.1-5.3_amd64.deb) ... Removing obsolete conffile /etc/init.d/hwclockfirst.sh ... Unpacking replacement util-linux ... Setting up util-linux (2.20.1-5.3) ... Installing new version of config file /etc/init.d/hwclock.sh ... (Reading database ... 10250 files and directories currently installed.) Preparing to replace insserv 1.14.0-2 (using .../insserv_1.14.0-5_amd64.deb) ... Unpacking replacement insserv ... Setting up insserv (1.14.0-5) ... Installing new version of config file /etc/insserv.conf ... (Reading database ... 10240 files and directories currently installed.) Preparing to replace sysvinit-utils 2.88dsf-13.1+squeeze1 (using .../sysvinit-utils_2.88dsf-41+deb7u1_amd64.deb) ... Unpacking replacement sysvinit-utils ... Setting up sysvinit-utils (2.88dsf-41+deb7u1) ... (Reading database ... 10242 files and directories currently installed.) Preparing to replace sysv-rc 2.88dsf-13.1+squeeze1 (using .../sysv-rc_2.88dsf-41+deb7u1_all.deb) ... Unpacking replacement sysv-rc ... Setting up sysv-rc (2.88dsf-41+deb7u1) ... Selecting previously unselected package libmount1. (Reading database ... 10243 files and directories currently installed.) Unpacking libmount1 (from .../libmount1_2.20.1-5.3_amd64.deb) ... Setting up libmount1 (2.20.1-5.3) ... (Reading database ... 10249 files and directories currently installed.) Preparing to replace mount 2.17.2-9 (using .../mount_2.20.1-5.3_amd64.deb) ... Unpacking replacement mount ... Setting up mount (2.20.1-5.3) ... (Reading database ... 10251 files and directories currently installed.) Preparing to replace libattr1 1:2.4.44-2 (using .../libattr1_1%3a2.4.46-8_amd64.deb) ... Unpacking replacement libattr1:amd64 ... Setting up libattr1:amd64 (1:2.4.46-8) ... (Reading database ... 10252 files and directories currently installed.) Preparing to replace libacl1 2.2.49-4 (using .../libacl1_2.2.51-8_amd64.deb) ... Unpacking replacement libacl1:amd64 ... Setting up libacl1:amd64 (2.2.51-8) ... (Reading database ... 10252 files and directories currently installed.) Preparing to replace coreutils 8.5-1 (using .../coreutils_8.13-3.5_amd64.deb) ... Unpacking replacement coreutils ... Setting up coreutils (8.13-3.5) ... (Reading database ... 10173 files and directories currently installed.) Preparing to replace initscripts 2.88dsf-13.1+squeeze1 (using .../initscripts_2.88dsf-41+deb7u1_amd64.deb) ... Removing unmodified and obsolete conffile /etc/default/bootlogd ... Removing unmodified and obsolete conffile /etc/init.d/mountoverflowtmp ... Upgrading unmodified configuration file /etc/default/rcS ... Unpacking replacement initscripts ... Setting up initscripts (2.88dsf-41+deb7u1) ... Installing new version of config file /etc/init.d/bootlogs ... Installing new version of config file /etc/init.d/bootmisc.sh ... Installing new version of config file /etc/init.d/checkfs.sh ... Installing new version of config file /etc/init.d/checkroot.sh ... Installing new version of config file /etc/init.d/mountall.sh ... Installing new version of config file /etc/init.d/mountall-bootclean.sh ... Installing new version of config file /etc/init.d/mountnfs.sh ... Installing new version of config file /etc/init.d/mountnfs-bootclean.sh ... Installing new version of config file /etc/init.d/mountdevsubfs.sh ... Installing new version of config file /etc/init.d/mountkernfs.sh ... Installing new version of config file /etc/init.d/mtab.sh ... Installing new version of config file /etc/init.d/rc.local ... Installing new version of config file /etc/init.d/sendsigs ... Installing new version of config file /etc/init.d/umountfs ... Installing new version of config file /etc/init.d/umountnfs.sh ... Installing new version of config file /etc/init.d/umountroot ... Installing new version of config file /etc/init.d/urandom ... Installing new version of config file /etc/default/tmpfs ... Installing new version of config file /etc/network/if-up.d/mountnfs ... guest environment detected: Linking /run to /var/run guest environment detected: Linking /run/lock to /var/lock guest environment detected: Linking /run/shm to /dev/shm (Reading database ... 10173 files and directories currently installed.) Preparing to replace base-files 6.0squeeze10 (using .../base-files_7.1wheezy11_amd64.deb) ... Unpacking replacement base-files ... Setting up base-files (7.1wheezy11) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Updating /etc/profile to current default. (Reading database ... 10176 files and directories currently installed.) Preparing to replace bash 4.1-3 (using .../bash_4.2+dfsg-0.1+deb7u4_amd64.deb) ... Unpacking replacement bash ... Setting up bash (4.2+dfsg-0.1+deb7u4) ... Installing new version of config file /etc/bash.bashrc ... Installing new version of config file /etc/skel/.bashrc ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 10179 files and directories currently installed.) Preparing to replace dash 0.5.5.1-7.4 (using .../dash_0.5.7-3_amd64.deb) ... Unpacking replacement dash ... Setting up dash (0.5.7-3) ... (Reading database ... 10179 files and directories currently installed.) Preparing to replace diffutils 1:3.0-1 (using .../diffutils_1%3a3.2-6_amd64.deb) ... Unpacking replacement diffutils ... Setting up diffutils (1:3.2-6) ... (Reading database ... 10180 files and directories currently installed.) Preparing to replace libcomerr2 1.41.12-4stable1 (using .../libcomerr2_1.42.5-1.1+deb7u1_amd64.deb) ... Unpacking replacement libcomerr2:amd64 ... Setting up libcomerr2:amd64 (1.42.5-1.1+deb7u1) ... (Reading database ... 10180 files and directories currently installed.) Preparing to replace e2fslibs 1.41.12-4stable1 (using .../e2fslibs_1.42.5-1.1+deb7u1_amd64.deb) ... Unpacking replacement e2fslibs:amd64 ... Setting up e2fslibs:amd64 (1.42.5-1.1+deb7u1) ... (Reading database ... 10180 files and directories currently installed.) Preparing to replace e2fsprogs 1.41.12-4stable1 (using .../e2fsprogs_1.42.5-1.1+deb7u1_amd64.deb) ... Unpacking replacement e2fsprogs ... Setting up e2fsprogs (1.42.5-1.1+deb7u1) ... Installing new version of config file /etc/mke2fs.conf ... (Reading database ... 10176 files and directories currently installed.) Preparing to replace findutils 4.4.2-1+b1 (using .../findutils_4.4.2-4_amd64.deb) ... Unpacking replacement findutils ... Setting up findutils (4.4.2-4) ... (Reading database ... 10176 files and directories currently installed.) Preparing to replace grep 2.6.3-3+squeeze1 (using .../archives/grep_2.12-2_amd64.deb) ... Unpacking replacement grep ... Setting up grep (2.12-2) ... (Reading database ... 10176 files and directories currently installed.) Preparing to replace gzip 1.3.12-9+squeeze1 (using .../gzip_1.5-1.1_amd64.deb) ... Unpacking replacement gzip ... Setting up gzip (1.5-1.1) ... (Reading database ... 10176 files and directories currently installed.) Preparing to replace hostname 3.04 (using .../hostname_3.11_amd64.deb) ... Unpacking replacement hostname ... Setting up hostname (3.11) ... (Reading database ... 10175 files and directories currently installed.) Preparing to replace login 1:4.1.4.2+svn3283-2+squeeze1 (using .../login_1%3a4.1.5.1-1+deb7u1_amd64.deb) ... Unpacking replacement login ... Setting up login (1:4.1.5.1-1+deb7u1) ... Installing new version of config file /etc/pam.d/login ... Installing new version of config file /etc/login.defs ... Installing new version of config file /etc/securetty ... (Reading database ... 10190 files and directories currently installed.) Preparing to replace ncurses-bin 5.7+20100313-5 (using .../ncurses-bin_5.9-10_amd64.deb) ... Unpacking replacement ncurses-bin ... Setting up ncurses-bin (5.9-10) ... Selecting previously unselected package libswitch-perl. (Reading database ... 10192 files and directories currently installed.) Unpacking libswitch-perl (from .../libswitch-perl_2.16-2_all.deb) ... Selecting previously unselected package libclass-isa-perl. Unpacking libclass-isa-perl (from .../libclass-isa-perl_0.36-3_all.deb) ... Preparing to replace perl-modules 5.10.1-17squeeze6 (using .../perl-modules_5.14.2-21+deb7u5_all.deb) ... Unpacking replacement perl-modules ... Preparing to replace libgdbm3 1.8.3-9 (using .../libgdbm3_1.8.3-11_amd64.deb) ... Unpacking replacement libgdbm3:amd64 ... Preparing to replace zlib1g 1:1.2.3.4.dfsg-3 (using .../zlib1g_1%3a1.2.7.dfsg-13_amd64.deb) ... Unpacking replacement zlib1g:amd64 ... Setting up zlib1g:amd64 (1:1.2.7.dfsg-13) ... (Reading database ... 10331 files and directories currently installed.) Preparing to replace perl 5.10.1-17squeeze6 (using .../perl_5.14.2-21+deb7u5_amd64.deb) ... Unpacking replacement perl ... Preparing to replace libtext-charwidth-perl 0.04-6 (using .../libtext-charwidth-perl_0.04-7+b1_amd64.deb) ... Unpacking replacement libtext-charwidth-perl ... Preparing to replace libtext-iconv-perl 1.7-2 (using .../libtext-iconv-perl_1.7-5_amd64.deb) ... Unpacking replacement libtext-iconv-perl ... Preparing to replace perl-base 5.10.1-17squeeze6 (using .../perl-base_5.14.2-21+deb7u5_amd64.deb) ... Unpacking replacement perl-base ... Setting up perl-base (5.14.2-21+deb7u5) ... (Reading database ... 10711 files and directories currently installed.) Preparing to replace liblocale-gettext-perl 1.05-6 (using .../liblocale-gettext-perl_1.05-7+b1_amd64.deb) ... Unpacking replacement liblocale-gettext-perl ... Preparing to replace sed 4.2.1-7 (using .../sed_4.2.1-10_amd64.deb) ... Unpacking replacement sed ... Setting up sed (4.2.1-10) ... (Reading database ... 10711 files and directories currently installed.) Preparing to replace sysvinit 2.88dsf-13.1+squeeze1 (using .../sysvinit_2.88dsf-41+deb7u1_amd64.deb) ... Unpacking replacement sysvinit ... Setting up sysvinit (2.88dsf-41+deb7u1) ... Not restarting sysvinit (Reading database ... 10711 files and directories currently installed.) Preparing to replace tar 1.23-3 (using .../tar_1.26+dfsg-0.1+deb7u1_amd64.deb) ... Unpacking replacement tar ... Setting up tar (1.26+dfsg-0.1+deb7u1) ... (Reading database ... 10712 files and directories currently installed.) Preparing to replace base-passwd 3.5.22 (using .../base-passwd_3.5.26_amd64.deb) ... Unpacking replacement base-passwd ... Setting up base-passwd (3.5.26) ... (Reading database ... 10714 files and directories currently installed.) Preparing to replace bsdutils 1:2.17.2-9 (using .../bsdutils_1%3a2.20.1-5.3_amd64.deb) ... Unpacking replacement bsdutils ... Setting up bsdutils (1:2.20.1-5.3) ... (Reading database ... 10714 files and directories currently installed.) Preparing to replace ncurses-base 5.7+20100313-5 (using .../ncurses-base_5.9-10_all.deb) ... Unpacking replacement ncurses-base ... Setting up ncurses-base (5.9-10) ... Installing new version of config file /etc/terminfo/README ... (Reading database ... 10716 files and directories currently installed.) Preparing to replace libstdc++6 4.4.5-8 (using .../libstdc++6_4.7.2-5_amd64.deb) ... Unpacking replacement libstdc++6:amd64 ... Setting up libstdc++6:amd64 (4.7.2-5) ... (Reading database ... 10716 files and directories currently installed.) Preparing to replace gpgv 1.4.10-4+squeeze4 (using .../gpgv_1.4.12-7+deb7u9_amd64.deb) ... Unpacking replacement gpgv ... Setting up gpgv (1.4.12-7+deb7u9) ... (Reading database ... 10716 files and directories currently installed.) Preparing to replace debian-archive-keyring 2010.08.28+squeeze1 (using .../debian-archive-keyring_2014.3~deb7u1_all.deb) ... Unpacking replacement debian-archive-keyring ... Setting up debian-archive-keyring (2014.3~deb7u1) ... (Reading database ... 10723 files and directories currently installed.) Preparing to replace readline-common 6.1-3 (using .../readline-common_6.2+dfsg-0.1_all.deb) ... Unpacking replacement readline-common ... Setting up readline-common (6.2+dfsg-0.1) ... (Reading database ... 10722 files and directories currently installed.) Preparing to replace libreadline6 6.1-3 (using .../libreadline6_6.2+dfsg-0.1_amd64.deb) ... Unpacking replacement libreadline6:amd64 ... Setting up libreadline6:amd64 (6.2+dfsg-0.1) ... (Reading database ... 10722 files and directories currently installed.) Preparing to replace libusb-0.1-4 2:0.1.12-16 (using .../libusb-0.1-4_2%3a0.1.12-20+nmu1_amd64.deb) ... Unpacking replacement libusb-0.1-4:amd64 ... Setting up libusb-0.1-4:amd64 (2:0.1.12-20+nmu1) ... (Reading database ... 10721 files and directories currently installed.) Preparing to replace gnupg 1.4.10-4+squeeze4 (using .../gnupg_1.4.12-7+deb7u9_amd64.deb) ... Unpacking replacement gnupg ... Setting up gnupg (1.4.12-7+deb7u9) ... Selecting previously unselected package libapt-pkg4.12:amd64. dpkg: considering deconfiguration of apt, which would be broken by installation of libapt-pkg4.12:amd64 ... dpkg: yes, will deconfigure apt (broken by libapt-pkg4.12:amd64) (Reading database ... 10710 files and directories currently installed.) Unpacking libapt-pkg4.12:amd64 (from .../libapt-pkg4.12_0.9.7.9+deb7u7_amd64.deb) ... De-configuring apt ... Setting up libapt-pkg4.12:amd64 (0.9.7.9+deb7u7) ... (Reading database ... 10758 files and directories currently installed.) Preparing to replace apt 0.8.10.3+squeeze1 (using .../apt_0.9.7.9+deb7u7_amd64.deb) ... Unpacking replacement apt ... Setting up apt (0.9.7.9+deb7u7) ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt ... gpg: key B98321F9: "Squeeze Stable Release Key " not changed gpg: key 473041FA: "Debian Archive Automatic Signing Key (6.0/squeeze) " not changed gpg: key 65FFB764: "Wheezy Stable Release Key " not changed gpg: key 46925553: "Debian Archive Automatic Signing Key (7.0/wheezy) " not changed gpg: key 518E17E1: "Jessie Stable Release Key " not changed gpg: key 2B90D010: "Debian Archive Automatic Signing Key (8/jessie) " not changed gpg: key C857C906: "Debian Security Archive Automatic Signing Key (8/jessie) " not changed gpg: Total number processed: 7 gpg: unchanged: 7 gpg: checking the trustdb gpg: WARNING: digest algorithm MD5 is deprecated gpg: please see http://www.gnupg.org/faq/weak-digest-algos.html for more information gpg: no ultimately trusted keys found (Reading database ... 10669 files and directories currently installed.) Preparing to replace libncurses5 5.7+20100313-5 (using .../libncurses5_5.9-10_amd64.deb) ... Unpacking replacement libncurses5:amd64 ... Setting up libncurses5:amd64 (5.9-10) ... (Reading database ... 10661 files and directories currently installed.) Preparing to replace libss2 1.41.12-4stable1 (using .../libss2_1.42.5-1.1+deb7u1_amd64.deb) ... Unpacking replacement libss2:amd64 ... Setting up libss2:amd64 (1.42.5-1.1+deb7u1) ... (Reading database ... 10661 files and directories currently installed.) Preparing to replace mawk 1.3.3-15 (using .../mawk_1.3.3-17_amd64.deb) ... Unpacking replacement mawk ... Preparing to replace libpam-runtime 1.1.1-6.1+squeeze1 (using .../libpam-runtime_1.1.3-7.1_all.deb) ... Unpacking replacement libpam-runtime ... Setting up libpam-runtime (1.1.3-7.1) ... (Reading database ... 10662 files and directories currently installed.) Preparing to replace xz-utils 5.0.0-2 (using .../xz-utils_5.1.1alpha+20120614-2_amd64.deb) ... Unpacking replacement xz-utils ... Setting up xz-utils (5.1.1alpha+20120614-2) ... update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode (Reading database ... 10664 files and directories currently installed.) Preparing to replace adduser 3.112+nmu2 (using .../adduser_3.113+nmu3_all.deb) ... Unpacking replacement adduser ... Preparing to replace debconf-i18n 1.5.36.1 (using .../debconf-i18n_1.5.49_all.deb) ... Unpacking replacement debconf-i18n ... Preparing to replace ucf 3.0025+nmu1 (using .../ucf_3.0025+nmu3_all.deb) ... Unpacking replacement ucf ... Preparing to replace bioperl 1.6.1-2 (using .../bioperl_1.6.901-3_all.deb) ... Unpacking replacement bioperl ... Selecting previously unselected package libbio-perl-perl. Unpacking libbio-perl-perl (from .../libbio-perl-perl_1.6.901-3_all.deb) ... Preparing to replace bioperl-run 1.6.1-1 (using .../bioperl-run_1.6.9-1_all.deb) ... Unpacking replacement bioperl-run ... Selecting previously unselected package libbio-perl-run-perl. Unpacking libbio-perl-run-perl (from .../libbio-perl-run-perl_1.6.9-1_all.deb) ... Preparing to replace gcc-4.4-base 4.4.5-8 (using .../gcc-4.4-base_4.4.7-2_amd64.deb) ... Unpacking replacement gcc-4.4-base:amd64 ... Setting up libclass-isa-perl (0.36-3) ... Setting up libgdbm3:amd64 (1.8.3-11) ... Setting up libtext-charwidth-perl (0.04-7+b1) ... Setting up libtext-iconv-perl (1.7-5) ... Setting up liblocale-gettext-perl (1.05-7+b1) ... Setting up mawk (1.3.3-17) ... Setting up adduser (3.113+nmu3) ... Installing new version of config file /etc/deluser.conf ... Setting up debconf-i18n (1.5.49) ... Setting up ucf (3.0025+nmu3) ... Setting up gcc-4.4-base:amd64 (4.4.7-2) ... Setting up libswitch-perl (2.16-2) ... Setting up perl-modules (5.14.2-21+deb7u5) ... Setting up perl (5.14.2-21+deb7u5) ... Setting up libbio-perl-perl (1.6.901-3) ... Setting up bioperl (1.6.901-3) ... Setting up libbio-perl-run-perl (1.6.9-1) ... Setting up bioperl-run (1.6.9-1) ... 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-yf', 'dist-upgrade'] 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m52.3s DUMP: 6ed2bbe865c6bd9fae88bce21ca4478c - 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'show', 'bioperl-run'] 0m52.4s DUMP: Package: bioperl-run Version: 1.6.9-1 Installed-Size: 144 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl, bioperl (>= 1.6.0), libbio-perl-run-perl (= 1.6.9-1) Recommends: amap-align, bedtools, blast2, bowtie, bwa, clustalw, emboss, exonerate, hmmer, infernal, kalign, maq, mafft, muscle, phyml, primer3, probcons, samtools, sim4, t-coffee, tigr-glimmer, wise Suggests: gmap, paml, molphy, phylip, ensembl Description: BioPerl wrappers: scripts Homepage: http://www.bioperl.org/wiki/Run_package Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.6.9-1_all.deb Size: 46294 MD5sum: e4e1eab03f0dfd9ddebcac2b1e6aa767 SHA1: 30dd4a966b8be7143e4e550579bdb2db5eabca04 SHA256: 687f553a99475cdcdff833f3600c1899353541832cba9daf513f2b7fa2d0ce29 0m52.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'show', 'bioperl-run'] 0m52.4s INFO: apt-cache knows about the following packages: bioperl-run 0m52.4s INFO: Running scripts pre_install 0m52.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_database-server'] 0m52.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_database-server'] 0m52.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_exceptions'] 0m52.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_exceptions'] 0m52.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_extras'] 0m52.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_extras'] 0m52.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture'] 0m52.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture'] 0m52.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m52.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m52.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy'] 0m52.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://security.debian.org/ wheezy/updates/main amd64 Packages release v=7.0,o=Debian,a=oldoldstable,n=wheezy,l=Debian-Security,c=main origin security.debian.org 500 http://mirror.bm.debian.org/debian/ wheezy/main amd64 Packages release v=7.11,o=Debian,a=oldoldstable,n=wheezy,l=Debian,c=main origin mirror.bm.debian.org Pinned packages: 0m52.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy'] 0m52.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy', 'bioperl-run'] 0m52.6s DUMP: bioperl-run: Installed: 1.6.9-1 Candidate: 1.6.9-1 Version table: *** 1.6.9-1 0 500 http://mirror.bm.debian.org/debian/ wheezy/main amd64 Packages 100 /var/lib/dpkg/status 0m52.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy', 'bioperl-run'] 0m52.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-y', 'install', 'bioperl-run'] 0m53.2s DUMP: Reading package lists... Building dependency tree... Reading state information... bioperl-run is already the newest version. The following package was automatically installed and is no longer required: libdb4.7 Use 'apt-get autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-y', 'install', 'bioperl-run'] 0m53.2s INFO: Running scripts post_install 0m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_install_exceptions'] 0m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_install_exceptions'] 0m53.2s INFO: Running scripts post_distupgrade 0m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_exceptions'] 0m53.2s DUMP: FIXING /usr/share/keyrings/debian-archive-removed-keys.gpg~ `/usr/share/keyrings/debian-archive-removed-keys.gpg~' -> `/usr/share/keyrings/debian-archive-removed-keys.gpg' 0m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_exceptions'] 0m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_experimental'] 0m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_experimental'] 0m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m53.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m53.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_hack_debsums'] 0m53.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_hack_debsums'] 0m53.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m53.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m53.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_zz_backports'] 0m53.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_distupgrade_zz_backports'] 0m53.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m55.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m55.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m56.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m56.6s INFO: Running scripts pre_install 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_database-server'] 0m56.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_database-server'] 0m56.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_exceptions'] 0m56.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_exceptions'] 0m56.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_extras'] 0m56.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_extras'] 0m56.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture'] 0m56.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture'] 0m56.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m56.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m56.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy'] 0m56.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://security.debian.org/ wheezy/updates/main amd64 Packages release v=7.0,o=Debian,a=oldoldstable,n=wheezy,l=Debian-Security,c=main origin security.debian.org 500 http://mirror.bm.debian.org/debian/ wheezy/main amd64 Packages release v=7.11,o=Debian,a=oldoldstable,n=wheezy,l=Debian,c=main origin mirror.bm.debian.org Pinned packages: 0m56.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy'] 0m56.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy', 'bioperl-run'] 0m56.8s DUMP: bioperl-run: Installed: 1.6.9-1 Candidate: 1.6.9-1 Version table: *** 1.6.9-1 0 500 http://mirror.bm.debian.org/debian/ wheezy/main amd64 Packages 100 /var/lib/dpkg/status 0m56.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-cache', 'policy', 'bioperl-run'] 0m56.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-y', 'install', 'bioperl-run=1.6.9-1'] 0m57.4s DUMP: Reading package lists... Building dependency tree... Reading state information... bioperl-run is already the newest version. The following package was automatically installed and is no longer required: libdb4.7 Use 'apt-get autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m57.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', '-y', 'install', 'bioperl-run=1.6.9-1'] 0m57.4s INFO: Running scripts post_install 0m57.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_install_exceptions'] 0m57.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_install_exceptions'] 0m57.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m59.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 0m59.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m59.2s DUMP: install ok installed adduser adduser 3.113+nmu3 install ok installed apt apt 0.9.7.9+deb7u7 install ok installed base-files base-files 7.1wheezy11 install ok installed base-passwd base-passwd 3.5.26 install ok installed bash bash 4.2+dfsg-0.1+deb7u4 install ok installed bioperl bioperl 1.6.901-3 install ok installed bioperl-run bioperl-run 1.6.9-1 install ok installed bsdutils bsdutils 1:2.20.1-5.3 install ok installed coreutils coreutils 8.13-3.5 install ok installed dash dash 0.5.7-3 install ok installed debconf debconf 1.5.49 install ok installed debconf-i18n debconf-i18n 1.5.49 install ok installed debian-archive-keyring debian-archive-keyring 2014.3~deb7u1 install ok installed debianutils debianutils 4.3.2 install ok installed diffutils diffutils 1:3.2-6 install ok installed dpkg dpkg 1.16.18 install ok installed e2fslibs:amd64 e2fslibs 1.42.5-1.1+deb7u1 install ok installed e2fsprogs e2fsprogs 1.42.5-1.1+deb7u1 install ok installed findutils findutils 4.4.2-4 install ok installed gcc-4.4-base:amd64 gcc-4.4-base 4.4.7-2 install ok installed gcc-4.7-base:amd64 gcc-4.7-base 4.7.2-5 install ok installed gnupg gnupg 1.4.12-7+deb7u9 install ok installed gpgv gpgv 1.4.12-7+deb7u9 install ok installed grep grep 2.12-2 install ok installed gzip gzip 1.5-1.1 install ok installed hostname hostname 3.11 install ok installed initscripts initscripts 2.88dsf-41+deb7u1 install ok installed insserv insserv 1.14.0-5 install ok installed libacl1:amd64 libacl1 2.2.51-8 install ok installed libapt-pkg4.12:amd64 libapt-pkg4.12 0.9.7.9+deb7u7 install ok installed libattr1:amd64 libattr1 1:2.4.46-8 install ok installed libbio-perl-perl libbio-perl-perl 1.6.901-3 install ok installed libbio-perl-run-perl libbio-perl-run-perl 1.6.9-1 install ok installed libblkid1:amd64 libblkid1 2.20.1-5.3 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-4 install ok installed libc-bin libc-bin 2.13-38+deb7u12 install ok installed libc6:amd64 libc6 2.13-38+deb7u12 install ok installed libclass-isa-perl libclass-isa-perl 0.36-3 install ok installed libcomerr2:amd64 libcomerr2 1.42.5-1.1+deb7u1 install ok installed libdata-stag-perl libdata-stag-perl 0.11-2 install ok installed libdb4.7 libdb4.7 4.7.25-9 install ok installed libdb4.8 libdb4.8 4.8.30-2 install ok installed libdb5.1:amd64 libdb5.1 5.1.29-5+deb7u1 install ok installed libgcc1:amd64 libgcc1 1:4.7.2-5 install ok installed libgdbm3:amd64 libgdbm3 1.8.3-11 install ok installed libio-string-perl libio-string-perl 1.08-2 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.05-7+b1 install ok installed liblzma2 liblzma2 5.0.0-2 install ok installed liblzma5:amd64 liblzma5 5.1.1alpha+20120614-2 install ok installed libmount1 libmount1 2.20.1-5.3 install ok installed libncurses5:amd64 libncurses5 5.9-10 install ok installed libpam-modules:amd64 libpam-modules 1.1.3-7.1 install ok installed libpam-modules-bin libpam-modules-bin 1.1.3-7.1 install ok installed libpam-runtime libpam-runtime 1.1.3-7.1 install ok installed libpam0g:amd64 libpam0g 1.1.3-7.1 install ok installed libreadline6:amd64 libreadline6 6.2+dfsg-0.1 install ok installed libselinux1:amd64 libselinux1 2.1.9-5 install ok installed libsemanage-common libsemanage-common 2.1.6-6 install ok installed libsemanage1:amd64 libsemanage1 2.1.6-6 install ok installed libsepol1:amd64 libsepol1 2.1.4-3 install ok installed libslang2:amd64 libslang2 2.2.4-15 install ok installed libss2:amd64 libss2 1.42.5-1.1+deb7u1 install ok installed libstdc++6:amd64 libstdc++6 4.7.2-5 install ok installed libswitch-perl libswitch-perl 2.16-2 install ok installed libtext-charwidth-perl libtext-charwidth-perl 0.04-7+b1 install ok installed libtext-iconv-perl libtext-iconv-perl 1.7-5 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-7 install ok installed libtinfo5:amd64 libtinfo5 5.9-10 install ok installed libusb-0.1-4:amd64 libusb-0.1-4 2:0.1.12-20+nmu1 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-3 install ok installed libuuid1:amd64 libuuid1 2.20.1-5.3 install ok installed login login 1:4.1.5.1-1+deb7u1 install ok installed lsb-base lsb-base 4.1+Debian8+deb7u1 install ok installed mawk mawk 1.3.3-17 install ok installed mount mount 2.20.1-5.3 install ok installed multiarch-support multiarch-support 2.13-38+deb7u12 install ok installed ncurses-base ncurses-base 5.9-10 install ok installed ncurses-bin ncurses-bin 5.9-10 install ok installed passwd passwd 1:4.1.5.1-1+deb7u1 install ok installed perl perl 5.14.2-21+deb7u5 install ok installed perl-base perl-base 5.14.2-21+deb7u5 install ok installed perl-modules perl-modules 5.14.2-21+deb7u5 install ok installed readline-common readline-common 6.2+dfsg-0.1 install ok installed sed sed 4.2.1-10 install ok installed sensible-utils sensible-utils 0.0.7+deb7u1 install ok installed sysv-rc sysv-rc 2.88dsf-41+deb7u1 install ok installed sysvinit sysvinit 2.88dsf-41+deb7u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-41+deb7u1 install ok installed tar tar 1.26+dfsg-0.1+deb7u1 install ok installed tzdata tzdata 2017c-0+deb7u1 install ok installed ucf ucf 3.0025+nmu3 install ok installed util-linux util-linux 2.20.1-5.3 install ok installed xz-utils xz-utils 5.1.1alpha+20120614-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.7.dfsg-13 0m59.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m0.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', '-ac', '--ignore-obsolete'] 1m2.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', '-ac', '--ignore-obsolete'] 1m2.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m3.0s DUMP: 0.15.1 1m3.0s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m3.0s INFO: Running adequate version 0.15.1 now. 1m3.0s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'bioperl-run'] 1m3.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'bioperl-run'] 1m3.2s INFO: Running scripts pre_remove 1m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_exceptions'] 1m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/pre_remove_exceptions'] 1m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'remove', 'libclass-isa-perl', 'perl-modules', 'libswitch-perl', 'libdata-stag-perl', 'libbio-perl-perl', 'libgdbm3:amd64', 'perl', 'libbio-perl-run-perl', 'libdb4.7', 'libio-string-perl', 'libdb4.8', 'gcc-4.4-base:amd64', 'bioperl', 'bioperl-run'] 1m6.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bioperl bioperl-run gcc-4.4-base libbio-perl-perl libbio-perl-run-perl libclass-isa-perl libdata-stag-perl libdb4.7 libdb4.8 libgdbm3 libio-string-perl libswitch-perl perl perl-modules 0 upgraded, 0 newly installed, 14 to remove and 0 not upgraded. After this operation, 56.4 MB disk space will be freed. (Reading database ... 10778 files and directories currently installed.) Removing bioperl-run ... Removing bioperl ... Removing gcc-4.4-base:amd64 ... Removing libbio-perl-run-perl ... Removing libbio-perl-perl ... Removing libdata-stag-perl ... Removing libio-string-perl ... Removing libdb4.7 ... Removing libdb4.8 ... Removing perl ... Removing perl-modules ... Removing libswitch-perl ... Removing libclass-isa-perl ... Removing libgdbm3:amd64 ... 1m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'remove', 'libclass-isa-perl', 'perl-modules', 'libswitch-perl', 'libdata-stag-perl', 'libbio-perl-perl', 'libgdbm3:amd64', 'perl', 'libbio-perl-run-perl', 'libdb4.7', 'libio-string-perl', 'libdb4.8', 'gcc-4.4-base:amd64', 'bioperl', 'bioperl-run'] 1m6.0s INFO: Running scripts post_remove 1m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_remove_exceptions'] 1m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_remove_exceptions'] 1m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_remove_extras'] 1m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_remove_extras'] 1m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--purge', 'libclass-isa-perl', 'perl-modules', 'libswitch-perl', 'libdata-stag-perl', 'libbio-perl-perl', 'libgdbm3:amd64', 'perl', 'libbio-perl-run-perl', 'libdb4.7', 'libio-string-perl', 'libdb4.8', 'gcc-4.4-base:amd64', 'bioperl'] 1m6.0s DUMP: dpkg: warning: ignoring request to remove libclass-isa-perl which isn't installed (Reading database ... 6796 files and directories currently installed.) Removing perl-modules ... Purging configuration files for perl-modules ... dpkg: warning: ignoring request to remove libswitch-perl which isn't installed dpkg: warning: ignoring request to remove libdata-stag-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-perl which isn't installed Removing libgdbm3:amd64 ... Purging configuration files for libgdbm3:amd64 ... dpkg: warning: ignoring request to remove perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-run-perl which isn't installed dpkg: warning: ignoring request to remove libdb4.7 which isn't installed dpkg: warning: ignoring request to remove libio-string-perl which isn't installed dpkg: warning: ignoring request to remove libdb4.8 which isn't installed dpkg: warning: ignoring request to remove gcc-4.4-base which isn't installed dpkg: warning: ignoring request to remove bioperl which isn't installed 1m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--purge', 'libclass-isa-perl', 'perl-modules', 'libswitch-perl', 'libdata-stag-perl', 'libbio-perl-perl', 'libgdbm3:amd64', 'perl', 'libbio-perl-run-perl', 'libdb4.7', 'libio-string-perl', 'libdb4.8', 'gcc-4.4-base:amd64', 'bioperl'] 1m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--purge', 'bioperl-run'] 1m6.1s DUMP: dpkg: warning: ignoring request to remove bioperl-run which isn't installed 1m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--purge', 'bioperl-run'] 1m6.1s INFO: Running scripts post_purge 1m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_purge_exceptions'] 1m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_purge_exceptions'] 1m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--purge', '--pending'] 1m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--purge', '--pending'] 1m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--remove', '--pending'] 1m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg', '--remove', '--pending'] 1m6.2s INFO: Running scripts post_test 1m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_test_exceptions'] 1m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'tmp/scripts/post_test_exceptions'] 1m6.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 1m7.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 1m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg-divert', '--list'] 1m7.5s DUMP: diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /bin/sync to /bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'dpkg-divert', '--list'] 1m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'clean'] 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpq9OneJ', 'apt-get', 'clean'] 1m7.5s DEBUG: Recording chroot state 1m11.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/shm'] 1m11.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/shm'] 1m11.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/console'] 1m11.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/console'] 1m11.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/ptmx'] 1m11.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/ptmx'] 1m11.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/pts'] 1m11.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/dev/pts'] 1m11.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/proc'] 1m11.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpq9OneJ/proc'] 1m11.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 1m11.6s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpq9OneJ'] 1m11.6s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpq9OneJ 1m11.7s INFO: PASS: Upgrading between Debian distributions. 1m11.7s INFO: PASS: All tests. 1m11.7s INFO: piuparts run ends. ret=0 End: 2018-01-28 01:06:03 UTC