Start: 2018-09-17 21:12:42 UTC Package: ncbi-blast+ Version: 2.2.26-3 Installed-Size: 32019 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: ncbi-data, python, perl, libbz2-1.0, libc6 (>= 2.8), libgcc1 (>= 1:4.1.1), libpcre3 (>= 8.10), libstdc++6 (>= 4.6), zlib1g (>= 1:1.2.0) Enhances: t-coffee Description: next generation suite of BLAST sequence search tools Multi-Arch: foreign Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ Description-md5: 395e56c55c29f8e445efe977ed605c4b Tag: field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, use::analysing, works-with::biological-sequence Section: science Priority: optional Filename: pool/main/n/ncbi-blast+/ncbi-blast+_2.2.26-3_amd64.deb Size: 11155644 MD5sum: ab0f357d0038d14923857b6ad37ef6b9 SHA1: e827e1a466f965113b704b59bad3d440f95ddd52 SHA256: 117f1a0d72ed84cdcc501b7ce85d51cac463ed2e94c2a9b57f4e9982a40b77ea 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 --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --skip-logrotatefiles-test --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/wheezy_amd64.tar.gz -d wheezy --no-upgrade-test --apt ncbi-blast+=2.2.26-3 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 0.92~201809130957~0.91-23-g805ff154 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --skip-logrotatefiles-test --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/wheezy_amd64.tar.gz -d wheezy --no-upgrade-test --apt ncbi-blast+=2.2.26-3 0m0.0s INFO: Running on: Linux piu-slave-bm-a 4.9.0-8-amd64 #1 SMP Debian 4.9.110-3+deb9u4 (2018-08-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpV0ppUF 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpV0ppUF 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz'] 0m2.0s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/proc'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/proc'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/pts'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/pts'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/ptmx'] 0m2.0s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/ptmx'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/5', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/console'] 0m2.0s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/5', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/console'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/run/shm'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/run/shm'] 0m2.1s DEBUG: sources.list: deb http://mirror.bm.debian.org/debian/ wheezy main 0m2.1s DEBUG: Created policy-rc.d and chmodded it. 0m2.1s DEBUG: Created resolv.conf. 0m2.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpV0ppUF/tmp/scripts/ 0m2.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts-wheezy to /srv/piuparts.debian.org/tmp/tmpV0ppUF/tmp/scripts/ 0m2.1s INFO: Running scripts post_chroot_unpack 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'update'] 0m4.9s DUMP: Hit http://mirror.bm.debian.org wheezy Release.gpg Hit http://mirror.bm.debian.org wheezy Release Hit http://mirror.bm.debian.org wheezy/main amd64 Packages Hit http://mirror.bm.debian.org wheezy/main Translation-en Reading package lists... 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'update'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', '-yf', 'dist-upgrade'] 0m5.4s DUMP: Reading package lists... Building dependency tree... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', '-yf', 'dist-upgrade'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.7s DUMP: 0c96df6df725ee7ec7aebd2b6a77fb72 - 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.7s INFO: Running scripts post_setup 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_dummy_users'] 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_dummy_users'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_experimental'] 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_experimental'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_forbid_home'] 0m7.4s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_forbid_home'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_force-unsafe-io'] 0m7.4s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' `/bin/sync' -> `true' 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_force-unsafe-io'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_minimize'] 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_minimize'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_squeeze-backports'] 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_squeeze-backports'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_wheezy-fake-essential'] 0m8.6s 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 335 kB of archives. After this operation, 1327 kB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ wheezy/main adduser all 3.113+nmu3 [264 kB] Get:2 http://mirror.bm.debian.org/debian/ wheezy/main ucf all 3.0025+nmu3 [70.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 335 kB in 0s (7822 kB/s) Selecting previously unselected package adduser. (Reading database ... 6639 files and directories currently installed.) Unpacking adduser (from .../adduser_3.113+nmu3_all.deb) ... Selecting previously unselected package ucf. Unpacking ucf (from .../ucf_3.0025+nmu3_all.deb) ... Moving old data out of the way Setting up adduser (3.113+nmu3) ... Setting up ucf (3.0025+nmu3) ... 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_wheezy-fake-essential'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_zz_backports'] 0m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_setup_zz_backports'] 0m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'clean'] 0m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'clean'] 0m8.7s DEBUG: Recording chroot state 0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.6s 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+deb7u3 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-4.7-base:amd64 gcc-4.7-base 4.7.2-5 install ok installed gnupg gnupg 1.4.12-7+deb7u7 install ok installed gpgv gpgv 1.4.12-7+deb7u7 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 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+deb7u10 install ok installed libc6:amd64 libc6 2.13-38+deb7u10 install ok installed libcomerr2:amd64 libcomerr2 1.42.5-1.1+deb7u1 install ok installed libdb5.1:amd64 libdb5.1 5.1.29-5 install ok installed libgcc1:amd64 libgcc1 1:4.7.2-5 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.05-7+b1 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 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 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+deb7u10 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 install ok installed perl-base perl-base 5.14.2-21+deb7u3 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 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 install ok installed tzdata tzdata 2016d-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 0m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-divert', '--list'] 0m10.7s 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 local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-divert', '--list'] 0m10.7s INFO: Running scripts is_testable 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/is_testable_uninstallable'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/is_testable_uninstallable'] 0m10.7s INFO: apt-cache does not know about any of the requested packages 0m10.7s INFO: Running scripts pre_test 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_test_exceptions'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_test_exceptions'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_test_root_password'] 0m10.8s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_test_root_password'] 0m10.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m12.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m13.8s DEBUG: No broken symlinks as far as we can find. 0m13.8s INFO: Running scripts pre_install 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_database-server'] 0m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_database-server'] 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_exceptions'] 0m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_exceptions'] 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_extras'] 0m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_extras'] 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_foreign_architecture'] 0m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_foreign_architecture'] 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-cache', 'show', '--no-all-versions', 'ncbi-blast+=2.2.26-3'] 0m15.5s DUMP: Package: ncbi-blast+ Version: 2.2.26-3 Installed-Size: 32019 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: ncbi-data, python, perl, libbz2-1.0, libc6 (>= 2.8), libgcc1 (>= 1:4.1.1), libpcre3 (>= 8.10), libstdc++6 (>= 4.6), zlib1g (>= 1:1.2.0) Enhances: t-coffee Description-en: next generation suite of BLAST sequence search tools The Basic Local Alignment Search Tool (BLAST) is the most widely used sequence similarity tool. There are versions of BLAST that compare protein queries to protein databases, nucleotide queries to nucleotide databases, as well as versions that translate nucleotide queries or databases in all six frames and compare to protein databases or queries. PSI-BLAST produces a position-specific-scoring-matrix (PSSM) starting with a protein query, and then uses that PSSM to perform further searches. It is also possible to compare a protein or nucleotide query to a database of PSSM??s. The NCBI supports a BLAST web page at blast.ncbi.nlm.nih.gov as well as a network service. Multi-Arch: foreign Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ Description-md5: 395e56c55c29f8e445efe977ed605c4b Tag: field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, use::analysing, works-with::biological-sequence Section: science Priority: optional Filename: pool/main/n/ncbi-blast+/ncbi-blast+_2.2.26-3_amd64.deb Size: 11155644 MD5sum: ab0f357d0038d14923857b6ad37ef6b9 SHA1: e827e1a466f965113b704b59bad3d440f95ddd52 SHA256: 117f1a0d72ed84cdcc501b7ce85d51cac463ed2e94c2a9b57f4e9982a40b77ea 0m15.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-cache', 'show', '--no-all-versions', 'ncbi-blast+=2.2.26-3'] 0m15.5s DEBUG: metapackage: Package: piuparts-depends-dummy Version: 0.invalid.0 Architecture: amd64 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: ncbi-data, python, perl, libbz2-1.0, libc6 (>= 2.8), libgcc1 (>= 1:4.1.1), libpcre3 (>= 8.10), libstdc++6 (>= 4.6), zlib1g (>= 1:1.2.0) 0m15.5s DEBUG: Starting command: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmplAk_An/piuparts-depends-dummy'] 0m15.5s DUMP: dpkg-deb: warning: not checking contents of control area dpkg-deb: building an unknown package in '/srv/piuparts.debian.org/tmp/tmplAk_An/piuparts-depends-dummy.deb'. 0m15.5s DEBUG: Command ok: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmplAk_An/piuparts-depends-dummy'] 0m15.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m15.6s DUMP: 0.9.7.9+deb7u7 0m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m15.6s DEBUG: Copying /srv/piuparts.debian.org/tmp/tmplAk_An/piuparts-depends-dummy.deb to /srv/piuparts.debian.org/tmp/tmpV0ppUF/tmp 0m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '-i', './tmp/piuparts-depends-dummy.deb'] 0m15.7s DUMP: Selecting previously unselected package piuparts-depends-dummy. (Reading database ... 6768 files and directories currently installed.) Unpacking piuparts-depends-dummy (from .../tmp/piuparts-depends-dummy.deb) ... dpkg: dependency problems prevent configuration of piuparts-depends-dummy: piuparts-depends-dummy depends on ncbi-data; however: Package ncbi-data is not installed. piuparts-depends-dummy depends on python; however: Package python is not installed. piuparts-depends-dummy depends on perl; however: Package perl is not installed. piuparts-depends-dummy depends on libpcre3 (>= 8.10); however: Package libpcre3 is not installed. dpkg: error processing piuparts-depends-dummy (--install): dependency problems - leaving unconfigured Errors were encountered while processing: piuparts-depends-dummy 0m15.7s DEBUG: Command failed (status=1), but ignoring error: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '-i', './tmp/piuparts-depends-dummy.deb'] 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', '-yf', 'install'] 0m22.1s DUMP: Reading package lists... Building dependency tree... Reading state information... Correcting dependencies... Done The following extra packages will be installed: libclass-isa-perl libexpat1 libgdbm3 libncursesw5 libpcre3 libsqlite3-0 libssl1.0.0 libswitch-perl mime-support ncbi-data perl perl-modules python python-minimal python2.7 python2.7-minimal Suggested packages: perl-doc libterm-readline-gnu-perl libterm-readline-perl-perl make libpod-plainer-perl python-doc python-tk python2.7-doc binutils binfmt-support Recommended packages: libgpm2 file netbase The following NEW packages will be installed: libclass-isa-perl libexpat1 libgdbm3 libncursesw5 libpcre3 libsqlite3-0 libssl1.0.0 libswitch-perl mime-support ncbi-data perl perl-modules python python-minimal python2.7 python2.7-minimal 0 upgraded, 16 newly installed, 0 to remove and 0 not upgraded. 1 not fully installed or removed. Need to get 20.9 MB of archives. After this operation, 76.4 MB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ wheezy/main ncbi-data all 6.1.20120620-2 [5893 kB] Get:2 http://mirror.bm.debian.org/debian/ wheezy/main libssl1.0.0 amd64 1.0.1e-2+deb7u20 [1263 kB] Get:3 http://mirror.bm.debian.org/debian/ wheezy/main python2.7-minimal amd64 2.7.3-6+deb7u2 [1785 kB] Get:4 http://mirror.bm.debian.org/debian/ wheezy/main mime-support all 3.52-1+deb7u1 [35.5 kB] Get:5 http://mirror.bm.debian.org/debian/ wheezy/main libexpat1 amd64 2.1.0-1+deb7u2 [139 kB] Get:6 http://mirror.bm.debian.org/debian/ wheezy/main libncursesw5 amd64 5.9-10 [141 kB] Get:7 http://mirror.bm.debian.org/debian/ wheezy/main libsqlite3-0 amd64 3.7.13-1+deb7u2 [454 kB] Get:8 http://mirror.bm.debian.org/debian/ wheezy/main python2.7 amd64 2.7.3-6+deb7u2 [2728 kB] Get:9 http://mirror.bm.debian.org/debian/ wheezy/main python-minimal all 2.7.3-4+deb7u1 [42.8 kB] Get:10 http://mirror.bm.debian.org/debian/ wheezy/main python all 2.7.3-4+deb7u1 [181 kB] Get:11 http://mirror.bm.debian.org/debian/ wheezy/main libswitch-perl all 2.16-2 [21.0 kB] Get:12 http://mirror.bm.debian.org/debian/ wheezy/main libclass-isa-perl all 0.36-3 [12.3 kB] Get:13 http://mirror.bm.debian.org/debian/ wheezy/main perl-modules all 5.14.2-21+deb7u3 [3444 kB] Get:14 http://mirror.bm.debian.org/debian/ wheezy/main libgdbm3 amd64 1.8.3-11 [46.9 kB] Get:15 http://mirror.bm.debian.org/debian/ wheezy/main perl amd64 5.14.2-21+deb7u3 [4429 kB] Get:16 http://mirror.bm.debian.org/debian/ wheezy/main libpcre3 amd64 1:8.30-5 [242 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 20.9 MB in 1s (17.3 MB/s) Selecting previously unselected package ncbi-data. (Reading database ... 6768 files and directories currently installed.) Unpacking ncbi-data (from .../ncbi-data_6.1.20120620-2_all.deb) ... Selecting previously unselected package libssl1.0.0:amd64. Unpacking libssl1.0.0:amd64 (from .../libssl1.0.0_1.0.1e-2+deb7u20_amd64.deb) ... Selecting previously unselected package python2.7-minimal. Unpacking python2.7-minimal (from .../python2.7-minimal_2.7.3-6+deb7u2_amd64.deb) ... Selecting previously unselected package mime-support. Unpacking mime-support (from .../mime-support_3.52-1+deb7u1_all.deb) ... Selecting previously unselected package libexpat1:amd64. Unpacking libexpat1:amd64 (from .../libexpat1_2.1.0-1+deb7u2_amd64.deb) ... Selecting previously unselected package libncursesw5:amd64. Unpacking libncursesw5:amd64 (from .../libncursesw5_5.9-10_amd64.deb) ... Selecting previously unselected package libsqlite3-0:amd64. Unpacking libsqlite3-0:amd64 (from .../libsqlite3-0_3.7.13-1+deb7u2_amd64.deb) ... Selecting previously unselected package python2.7. Unpacking python2.7 (from .../python2.7_2.7.3-6+deb7u2_amd64.deb) ... Selecting previously unselected package python-minimal. Unpacking python-minimal (from .../python-minimal_2.7.3-4+deb7u1_all.deb) ... Selecting previously unselected package python. Unpacking python (from .../python_2.7.3-4+deb7u1_all.deb) ... Selecting previously unselected package libswitch-perl. 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) ... Selecting previously unselected package perl-modules. Unpacking perl-modules (from .../perl-modules_5.14.2-21+deb7u3_all.deb) ... Selecting previously unselected package libgdbm3:amd64. Unpacking libgdbm3:amd64 (from .../libgdbm3_1.8.3-11_amd64.deb) ... Selecting previously unselected package perl. Unpacking perl (from .../perl_5.14.2-21+deb7u3_amd64.deb) ... Selecting previously unselected package libpcre3:amd64. Unpacking libpcre3:amd64 (from .../libpcre3_1%3a8.30-5_amd64.deb) ... Setting up ncbi-data (6.1.20120620-2) ... Setting up libssl1.0.0:amd64 (1.0.1e-2+deb7u20) ... Setting up python2.7-minimal (2.7.3-6+deb7u2) ... Setting up mime-support (3.52-1+deb7u1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode Setting up libexpat1:amd64 (2.1.0-1+deb7u2) ... Setting up libncursesw5:amd64 (5.9-10) ... Setting up libsqlite3-0:amd64 (3.7.13-1+deb7u2) ... Setting up python2.7 (2.7.3-6+deb7u2) ... Setting up python-minimal (2.7.3-4+deb7u1) ... Setting up python (2.7.3-4+deb7u1) ... Setting up libclass-isa-perl (0.36-3) ... Setting up libgdbm3:amd64 (1.8.3-11) ... Setting up libpcre3:amd64 (1:8.30-5) ... Setting up perl-modules (5.14.2-21+deb7u3) ... Setting up perl (5.14.2-21+deb7u3) ... update-alternatives: using /usr/bin/prename to provide /usr/bin/rename (rename) in auto mode Setting up piuparts-depends-dummy (0.invalid.0) ... Setting up libswitch-perl (2.16-2) ... 0m22.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', '-yf', 'install'] 0m22.1s INFO: Installation of ['./tmp/piuparts-depends-dummy.deb'] ok 0m22.1s DEBUG: Removing /srv/piuparts.debian.org/tmp/tmpV0ppUF/./tmp/piuparts-depends-dummy.deb 0m22.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m22.2s DUMP: piuparts-depends-dummy install ok installed 0m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m22.2s DUMP: (Reading database ... 9187 files and directories currently installed.) Removing piuparts-depends-dummy ... 0m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'clean'] 0m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'clean'] 0m22.2s DEBUG: Recording chroot state 0m24.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m25.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m28.3s DEBUG: No broken symlinks as far as we can find. 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-cache', 'policy'] 0m30.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror.bm.debian.org/debian/ wheezy/main Translation-en 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: 0m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-cache', 'policy'] 0m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-cache', 'policy', 'ncbi-blast+'] 0m30.0s DUMP: ncbi-blast+: Installed: (none) Candidate: 2.2.26-3 Version table: 2.2.26-3 0 500 http://mirror.bm.debian.org/debian/ wheezy/main amd64 Packages 0m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-cache', 'policy', 'ncbi-blast+'] 0m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', '-y', 'install', 'ncbi-blast+=2.2.26-3'] 0m31.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: ncbi-blast+ 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 11.2 MB of archives. After this operation, 32.8 MB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ wheezy/main ncbi-blast+ amd64 2.2.26-3 [11.2 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 11.2 MB in 0s (25.9 MB/s) Selecting previously unselected package ncbi-blast+. (Reading database ... 9187 files and directories currently installed.) Unpacking ncbi-blast+ (from .../ncbi-blast+_2.2.26-3_amd64.deb) ... Setting up ncbi-blast+ (2.2.26-3) ... 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', '-y', 'install', 'ncbi-blast+=2.2.26-3'] 0m31.9s INFO: Running scripts post_install 0m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_install_exceptions'] 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_install_exceptions'] 0m31.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m33.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m36.1s DEBUG: No broken symlinks as far as we can find. 0m36.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m36.2s 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+deb7u3 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-4.7-base:amd64 gcc-4.7-base 4.7.2-5 install ok installed gnupg gnupg 1.4.12-7+deb7u7 install ok installed gpgv gpgv 1.4.12-7+deb7u7 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 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+deb7u10 install ok installed libc6:amd64 libc6 2.13-38+deb7u10 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 libdb5.1:amd64 libdb5.1 5.1.29-5 install ok installed libexpat1:amd64 libexpat1 2.1.0-1+deb7u2 install ok installed libgcc1:amd64 libgcc1 1:4.7.2-5 install ok installed libgdbm3:amd64 libgdbm3 1.8.3-11 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.05-7+b1 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 libncursesw5:amd64 libncursesw5 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 libpcre3:amd64 libpcre3 1:8.30-5 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 libsqlite3-0:amd64 libsqlite3-0 3.7.13-1+deb7u2 install ok installed libss2:amd64 libss2 1.42.5-1.1+deb7u1 install ok installed libssl1.0.0:amd64 libssl1.0.0 1.0.1e-2+deb7u20 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 install ok installed lsb-base lsb-base 4.1+Debian8+deb7u1 install ok installed mawk mawk 1.3.3-17 install ok installed mime-support mime-support 3.52-1+deb7u1 install ok installed mount mount 2.20.1-5.3 install ok installed multiarch-support multiarch-support 2.13-38+deb7u10 install ok installed ncbi-blast+ ncbi-blast+ 2.2.26-3 install ok installed ncbi-data ncbi-data 6.1.20120620-2 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 install ok installed perl perl 5.14.2-21+deb7u3 install ok installed perl-base perl-base 5.14.2-21+deb7u3 install ok installed perl-modules perl-modules 5.14.2-21+deb7u3 install ok installed python python 2.7.3-4+deb7u1 install ok installed python-minimal python-minimal 2.7.3-4+deb7u1 install ok installed python2.7 python2.7 2.7.3-6+deb7u2 install ok installed python2.7-minimal python2.7-minimal 2.7.3-6+deb7u2 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 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 install ok installed tzdata tzdata 2016d-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 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m37.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', '-ac', '--ignore-obsolete'] 0m39.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', '-ac', '--ignore-obsolete'] 0m39.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m39.5s DUMP: 0.15.1 0m39.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m39.5s INFO: Running adequate version 0.15.1 now. 0m39.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'ncbi-blast+'] 0m41.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'ncbi-blast+'] 0m41.8s INFO: Running scripts pre_remove 0m41.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m41.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m41.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m41.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m41.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m43.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m43.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m43.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m43.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m43.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_exceptions'] 0m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/pre_remove_exceptions'] 0m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'remove', 'libclass-isa-perl', 'libpcre3:amd64', 'perl-modules', 'libswitch-perl', 'python', 'libexpat1:amd64', 'python2.7', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'perl', 'libncursesw5:amd64', 'python2.7-minimal', 'mime-support', 'ncbi-data', 'python-minimal', 'libsqlite3-0:amd64', 'ncbi-blast+'] 0m45.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: libclass-isa-perl libexpat1 libgdbm3 libncursesw5 libpcre3 libsqlite3-0 libssl1.0.0 libswitch-perl mime-support ncbi-blast+ ncbi-data perl perl-modules python python-minimal python2.7 python2.7-minimal 0 upgraded, 0 newly installed, 17 to remove and 0 not upgraded. After this operation, 109 MB disk space will be freed. (Reading database ... 9282 files and directories currently installed.) Removing ncbi-blast+ ... Removing python ... Removing python2.7 ... Removing libexpat1:amd64 ... Removing libncursesw5:amd64 ... Removing libpcre3:amd64 ... Removing libsqlite3-0:amd64 ... Removing python-minimal ... Removing python2.7-minimal ... Removing libssl1.0.0:amd64 ... Removing mime-support ... Removing ncbi-data ... Removing perl ... Removing perl-modules ... Removing libswitch-perl ... Removing libclass-isa-perl ... Removing libgdbm3:amd64 ... 0m45.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'remove', 'libclass-isa-perl', 'libpcre3:amd64', 'perl-modules', 'libswitch-perl', 'python', 'libexpat1:amd64', 'python2.7', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'perl', 'libncursesw5:amd64', 'python2.7-minimal', 'mime-support', 'ncbi-data', 'python-minimal', 'libsqlite3-0:amd64', 'ncbi-blast+'] 0m45.0s INFO: Running scripts post_remove 0m45.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_remove_exceptions'] 0m45.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_remove_exceptions'] 0m45.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_remove_extras'] 0m45.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_remove_extras'] 0m45.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', 'libclass-isa-perl', 'libpcre3:amd64', 'perl-modules', 'libswitch-perl', 'python', 'libexpat1:amd64', 'python2.7', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'perl', 'libncursesw5:amd64', 'python2.7-minimal', 'mime-support', 'ncbi-data', 'python-minimal', 'libsqlite3-0:amd64'] 0m45.3s DUMP: dpkg: warning: ignoring request to remove libclass-isa-perl which isn't installed (Reading database ... 6778 files and directories currently installed.) Removing libpcre3:amd64 ... Purging configuration files for libpcre3:amd64 ... Removing perl-modules ... Purging configuration files for perl-modules ... dpkg: warning: ignoring request to remove libswitch-perl which isn't installed Removing python ... Purging configuration files for python ... Removing libexpat1:amd64 ... Purging configuration files for libexpat1:amd64 ... Removing python2.7 ... Purging configuration files for python2.7 ... Removing libssl1.0.0:amd64 ... Purging configuration files for libssl1.0.0:amd64 ... Removing libgdbm3:amd64 ... Purging configuration files for libgdbm3:amd64 ... dpkg: warning: ignoring request to remove perl which isn't installed Removing libncursesw5:amd64 ... Purging configuration files for libncursesw5:amd64 ... Removing python2.7-minimal ... Purging configuration files for python2.7-minimal ... Removing mime-support ... Purging configuration files for mime-support ... Removing ncbi-data ... Purging configuration files for ncbi-data ... dpkg: warning: ignoring request to remove python-minimal which isn't installed Removing libsqlite3-0:amd64 ... Purging configuration files for libsqlite3-0:amd64 ... 0m45.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', 'libclass-isa-perl', 'libpcre3:amd64', 'perl-modules', 'libswitch-perl', 'python', 'libexpat1:amd64', 'python2.7', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'perl', 'libncursesw5:amd64', 'python2.7-minimal', 'mime-support', 'ncbi-data', 'python-minimal', 'libsqlite3-0:amd64'] 0m45.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', 'ncbi-blast+'] 0m45.3s DUMP: dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed 0m45.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', 'ncbi-blast+'] 0m45.3s INFO: Running scripts post_purge 0m45.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_purge_exceptions'] 0m45.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_purge_exceptions'] 0m45.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', '--pending'] 0m45.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--purge', '--pending'] 0m45.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--remove', '--pending'] 0m45.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg', '--remove', '--pending'] 0m45.4s INFO: Running scripts post_test 0m45.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_test_exceptions'] 0m45.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'tmp/scripts/post_test_exceptions'] 0m45.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m46.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m48.9s DEBUG: No broken symlinks as far as we can find. 0m48.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-divert', '--list'] 0m48.9s 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 local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m48.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'dpkg-divert', '--list'] 0m48.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'clean'] 0m48.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpV0ppUF', 'apt-get', 'clean'] 0m48.9s DEBUG: Recording chroot state 0m51.7s INFO: PASS: Installation and purging test. 0m52.9s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/run/shm'] 0m52.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/run/shm'] 0m52.9s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/console'] 0m53.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/console'] 0m53.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/ptmx'] 0m53.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/ptmx'] 0m53.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/pts'] 0m53.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/dev/pts'] 0m53.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/proc'] 0m53.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpV0ppUF/proc'] 0m53.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m53.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpV0ppUF'] 0m53.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpV0ppUF 0m53.3s INFO: PASS: All tests. 0m53.3s INFO: piuparts run ends. ret=0 End: 2018-09-17 21:13:35 UTC