Start: 2014-08-17 17:40:25 UTC Package: maq Priority: optional Section: science Installed-Size: 568 Maintainer: Debian-Med Packaging Team Architecture: amd64 Version: 0.7.1-3 Depends: libc6 (>= 2.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.1.1), zlib1g (>= 1:1.2.3.3.dfsg) Filename: pool/main/m/maq/maq_0.7.1-3_amd64.deb Size: 328748 MD5sum: d09d86f0dc5fa7dba5b567a682744e13 SHA1: 192243217fd3362a568707d7983fa307bc055518 SHA256: 30e19fb245a747f0e321e280a73a0ccb3fd1fff66877ac6d3a6cfaca007db153 Description: maps short fixed-length polymorphic DNA sequence reads to reference sequences Maq (short for Mapping and Assembly with Quality) builds mapping assemblies from short reads generated by the next-generation sequencing machines. It is particularly designed for Illumina-Solexa 1G Genetic Analyzer, and has a preliminary functionality to handle ABI SOLiD data. Maq is previously known as mapass2. . With Maq you can: - Fast align Illumina/SOLiD reads to the reference genome. With the default options, one million pairs of reads can be mapped to the human genome in about 10 CPU hours with less than 1G memory. - Accurately measure the error probability of the alignment of each individual read. - Call the consensus genotypes, including homozygous and heterozygous polymorphisms, with a Phred probabilistic quality assigned to each base. - Find short indels with paired end reads. - Accurately find large scale genomic deletions and translocations with paired end reads. - Discover potential CNVs by checking read depth. - Evaluate the accuracy of raw base qualities from sequencers and help to check the systematic errors. . However, Maq can NOT: - Do de novo assembly. (Maq can only call the consensus by mapping reads to a known reference.) - Map shorts reads against themselves. (Maq can only find complete overlap between reads.) - Align capillary reads or 454 reads to the reference. (Maq cannot align reads longer than 63bp.) . This package is likely to be useful for users working with genetics or genomic studies in biology who need to assembly DNA sequences from fixed-length sequencers. Homepage: http://maq.sourceforge.net/ Tag: biology::nuceleic-acids, field::biology, field::biology:bioinformatics, implemented-in::c++, implemented-in::perl, interface::commandline, qa::low-popcon, role::program, scope::utility, use::{analysing,comparing,searching}, works-with-format::plaintext Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python2.7/dist-packages timeout -s INT -k 5m 35m /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 --scriptsdir /etc/piuparts/scripts-squeeze --warn-on-debsums-errors --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 --no-upgrade-test --apt maq=0.7.1-3 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 0.59 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 --scriptsdir /etc/piuparts/scripts-squeeze --warn-on-debsums-errors --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 --no-upgrade-test --apt maq=0.7.1-3 0m0.0s INFO: Running on: Linux piu-slave-bm-a 3.2.0-4-amd64 #1 SMP Debian 3.2.60-1+deb7u3 x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp6i5ek5 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp6i5ek5 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz'] 0m1.7s DUMP: tar: ./proc: time stamp 2014-10-15 13:49:47 is 5083761.077316977 s in the future 0m1.7s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'mount', '-t', 'proc', 'proc', '/proc'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'mount', '-t', 'proc', 'proc', '/proc'] 0m1.8s DEBUG: sources.list: deb http://mirror.bm.debian.org/debian/ squeeze main 0m1.8s DEBUG: Created policy-rc.d and chmodded it. 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'update'] 0m1.8s DUMP: Hit http://mirror.bm.debian.org squeeze Release.gpg Ign http://mirror.bm.debian.org/debian/ squeeze/main Translation-en Hit http://mirror.bm.debian.org squeeze Release Hit http://mirror.bm.debian.org squeeze/main amd64 Packages Reading package lists... 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'update'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DUMP: Reading package lists... Building dependency tree... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp6i5ek5/tmp/scripts/ 0m2.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts-squeeze to /srv/piuparts.debian.org/tmp/tmp6i5ek5/tmp/scripts/ 0m2.1s INFO: Running scripts post_setup 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_experimental'] 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_experimental'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_forbid_home'] 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_forbid_home'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_squeeze-fake-essential'] 0m2.9s 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://mirror.bm.debian.org/debian/ squeeze/main adduser all 3.112+nmu2 [250 kB] Get:2 http://mirror.bm.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 (6422 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) ... 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_setup_squeeze-fake-essential'] 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'clean'] 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'clean'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--get-selections', '*'] 0m3.4s DUMP: adduser install apt install base-files install base-passwd install bash install bsdutils install coreutils install dash install debconf install debconf-i18n install debian-archive-keyring install debianutils install diffutils install dpkg install e2fslibs install e2fsprogs install findutils install gcc-4.4-base install gnupg install gpgv install grep install gzip install hostname install initscripts install insserv install libacl1 install libattr1 install libblkid1 install libbz2-1.0 install libc-bin install libc6 install libcomerr2 install libdb4.8 install libgcc1 install liblocale-gettext-perl install liblzma2 install libncurses5 install libpam-modules install libpam-runtime install libpam0g install libreadline6 install libselinux1 install libsepol1 install libslang2 install libss2 install libstdc++6 install libtext-charwidth-perl install libtext-iconv-perl install libtext-wrapi18n-perl install libusb-0.1-4 install libuuid1 install login install lsb-base install mawk install mount install ncurses-base install ncurses-bin install passwd install perl-base install readline-common install sed install sensible-utils install sysv-rc install sysvinit install sysvinit-utils install tar install tzdata install ucf install util-linux install xz-utils install zlib1g install 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--get-selections', '*'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg-divert', '--list'] 0m3.5s 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 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg-divert', '--list'] 0m3.5s INFO: apt-cache does not know about any of the requested packages 0m3.5s INFO: Running scripts pre_test 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_test_root_password'] 0m3.5s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_test_root_password'] 0m3.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m3.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m4.5s DEBUG: No broken symlinks as far as we can find. 0m4.5s INFO: Running scripts pre_install 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_database-server'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_database-server'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_exceptions'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_exceptions'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_extras'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_extras'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-cache', 'show', 'maq=0.7.1-3'] 0m4.6s DUMP: Package: maq Priority: optional Section: science Installed-Size: 568 Maintainer: Debian-Med Packaging Team Architecture: amd64 Version: 0.7.1-3 Depends: libc6 (>= 2.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.1.1), zlib1g (>= 1:1.2.3.3.dfsg) Filename: pool/main/m/maq/maq_0.7.1-3_amd64.deb Size: 328748 MD5sum: d09d86f0dc5fa7dba5b567a682744e13 SHA1: 192243217fd3362a568707d7983fa307bc055518 SHA256: 30e19fb245a747f0e321e280a73a0ccb3fd1fff66877ac6d3a6cfaca007db153 Description: maps short fixed-length polymorphic DNA sequence reads to reference sequences Maq (short for Mapping and Assembly with Quality) builds mapping assemblies from short reads generated by the next-generation sequencing machines. It is particularly designed for Illumina-Solexa 1G Genetic Analyzer, and has a preliminary functionality to handle ABI SOLiD data. Maq is previously known as mapass2. . With Maq you can: - Fast align Illumina/SOLiD reads to the reference genome. With the default options, one million pairs of reads can be mapped to the human genome in about 10 CPU hours with less than 1G memory. - Accurately measure the error probability of the alignment of each individual read. - Call the consensus genotypes, including homozygous and heterozygous polymorphisms, with a Phred probabilistic quality assigned to each base. - Find short indels with paired end reads. - Accurately find large scale genomic deletions and translocations with paired end reads. - Discover potential CNVs by checking read depth. - Evaluate the accuracy of raw base qualities from sequencers and help to check the systematic errors. . However, Maq can NOT: - Do de novo assembly. (Maq can only call the consensus by mapping reads to a known reference.) - Map shorts reads against themselves. (Maq can only find complete overlap between reads.) - Align capillary reads or 454 reads to the reference. (Maq cannot align reads longer than 63bp.) . This package is likely to be useful for users working with genetics or genomic studies in biology who need to assembly DNA sequences from fixed-length sequencers. Homepage: http://maq.sourceforge.net/ Tag: biology::nuceleic-acids, field::biology, field::biology:bioinformatics, implemented-in::c++, implemented-in::perl, interface::commandline, qa::low-popcon, role::program, scope::utility, use::{analysing,comparing,searching}, works-with-format::plaintext 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-cache', 'show', 'maq=0.7.1-3'] 0m4.6s DEBUG: metapackage: Package: piuparts-depends-dummy Version: 0.invalid.0 Architecture: all Maintainer: piuparts developers team Description: Dummy package to satisfy dependencies - created by piuparts This package was created automatically by piuparts and can safely be removed Depends: libc6 (>= 2.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.1.1), zlib1g (>= 1:1.2.3.3.dfsg) 0m4.6s DEBUG: Starting command: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpEXb3d2/piuparts-depends-dummy'] 0m4.6s DUMP: dpkg-deb: warning: not checking contents of control area dpkg-deb: building an unknown package in '/srv/piuparts.debian.org/tmp/tmpEXb3d2/piuparts-depends-dummy.deb'. 0m4.6s DEBUG: Command ok: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpEXb3d2/piuparts-depends-dummy'] 0m4.6s DEBUG: Copying /srv/piuparts.debian.org/tmp/tmpEXb3d2/piuparts-depends-dummy.deb to /srv/piuparts.debian.org/tmp/tmp6i5ek5/tmp 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '-i', 'tmp/piuparts-depends-dummy.deb'] 0m4.7s DUMP: Selecting previously deselected package piuparts-depends-dummy. (Reading database ... 6261 files and directories currently installed.) Unpacking piuparts-depends-dummy (from tmp/piuparts-depends-dummy.deb) ... Setting up piuparts-depends-dummy (0.invalid.0) ... 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '-i', 'tmp/piuparts-depends-dummy.deb'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', '-yf', 'install'] 0m5.0s DUMP: Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', '-yf', 'install'] 0m5.0s INFO: Installation of ['tmp/piuparts-depends-dummy.deb'] ok 0m5.0s DEBUG: Removing /srv/piuparts.debian.org/tmp/tmp6i5ek5/tmp/piuparts-depends-dummy.deb 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m5.1s DUMP: piuparts-depends-dummy install ok installed 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m5.1s DUMP: (Reading database ... 6261 files and directories currently installed.) Removing piuparts-depends-dummy ... 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'clean'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'clean'] 0m5.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m5.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m6.6s DEBUG: No broken symlinks as far as we can find. 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-cache', 'policy'] 0m6.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror.bm.debian.org/debian/ squeeze/main amd64 Packages release v=6.0.10,o=Debian,a=oldstable,n=squeeze,l=Debian,c=main origin mirror.bm.debian.org Pinned packages: 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-cache', 'policy'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-cache', 'policy', 'maq'] 0m6.7s DUMP: maq: Installed: (none) Candidate: 0.7.1-3 Version table: 0.7.1-3 0 500 http://mirror.bm.debian.org/debian/ squeeze/main amd64 Packages 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-cache', 'policy', 'maq'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', '-y', 'install', 'maq=0.7.1-3'] 0m7.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: maq 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 329 kB of archives. After this operation, 582 kB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ squeeze/main maq amd64 0.7.1-3 [329 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 329 kB in 0s (2823 kB/s) Selecting previously deselected package maq. (Reading database ... 6261 files and directories currently installed.) Unpacking maq (from .../archives/maq_0.7.1-3_amd64.deb) ... Setting up maq (0.7.1-3) ... 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', '-y', 'install', 'maq=0.7.1-3'] 0m7.4s INFO: Running scripts post_install 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_install_exceptions'] 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_install_exceptions'] 0m7.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m7.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m8.4s DEBUG: No broken symlinks as far as we can find. 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--get-selections', '*'] 0m8.5s DUMP: adduser install apt install base-files install base-passwd install bash install bsdutils install coreutils install dash install debconf install debconf-i18n install debian-archive-keyring install debianutils install diffutils install dpkg install e2fslibs install e2fsprogs install findutils install gcc-4.4-base install gnupg install gpgv install grep install gzip install hostname install initscripts install insserv install libacl1 install libattr1 install libblkid1 install libbz2-1.0 install libc-bin install libc6 install libcomerr2 install libdb4.8 install libgcc1 install liblocale-gettext-perl install liblzma2 install libncurses5 install libpam-modules install libpam-runtime install libpam0g install libreadline6 install libselinux1 install libsepol1 install libslang2 install libss2 install libstdc++6 install libtext-charwidth-perl install libtext-iconv-perl install libtext-wrapi18n-perl install libusb-0.1-4 install libuuid1 install login install lsb-base install maq install mawk install mount install ncurses-base install ncurses-bin install passwd install perl-base install readline-common install sed install sensible-utils install sysv-rc install sysvinit install sysvinit-utils install tar install tzdata install ucf install util-linux install xz-utils install zlib1g install 0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--get-selections', '*'] 0m9.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', '-ac'] 0m9.5s DUMP: debsums: no md5sums for mawk 0m9.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', '-ac'] 0m9.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m9.5s DUMP: 0.12~bpo70+1 0m9.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m9.5s INFO: Running adequate version 0.12~bpo70+1 now. 0m9.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'maq'] 0m9.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'maq'] 0m9.6s INFO: Running scripts pre_remove 0m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_exceptions'] 0m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/pre_remove_exceptions'] 0m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'remove', 'maq'] 0m10.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: maq 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. After this operation, 582 kB disk space will be freed. (Reading database ... 6285 files and directories currently installed.) Removing maq ... 0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'remove', 'maq'] 0m10.3s INFO: Running scripts post_remove 0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_remove_exceptions_lenny'] 0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_remove_exceptions_lenny'] 0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_remove_extras'] 0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_remove_extras'] 0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--purge', 'maq'] 0m10.4s DUMP: dpkg: warning: ignoring request to remove maq which isn't installed. 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--purge', 'maq'] 0m10.4s INFO: Running scripts post_purge 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_purge_exceptions'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'tmp/scripts/post_purge_exceptions'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--purge', '--pending'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--purge', '--pending'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--remove', '--pending'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg', '--remove', '--pending'] 0m10.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m10.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m11.4s DEBUG: No broken symlinks as far as we can find. 0m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg-divert', '--list'] 0m11.4s 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 0m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'dpkg-divert', '--list'] 0m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'clean'] 0m11.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'apt-get', 'clean'] 0m12.4s INFO: PASS: Installation and purging test. 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'umount', '/proc'] 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6i5ek5', 'umount', '/proc'] 0m12.7s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m12.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp6i5ek5'] 0m12.8s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp6i5ek5 0m12.8s INFO: PASS: All tests. 0m12.8s INFO: piuparts run ends. ret=0 End: 2014-08-17 17:40:38 UTC