Start: 2018-06-06 13:40:30 UTC [wheezy] Package: ruby-bio Version: 1.4.2-3 Installed-Size: 3141 Maintainer: Debian Ruby Extras Maintainers Architecture: all Replaces: libbio-ruby (<< 1.4.1-2~), libbio-ruby1.8 (<< 1.4.1-2~) Provides: libbio-ruby, libbio-ruby1.8 Depends: ruby | ruby-interpreter Recommends: blast2, hmmer, mafft, muscle, probcons, sim4, t-coffee Suggests: clustalw, emboss Breaks: libbio-ruby (<< 1.4.1-2~), libbio-ruby1.8 (<< 1.4.1-2~) Description: Ruby tools for computational molecular biology Homepage: http://www.bioruby.org/ Description-md5: 9551e5ebe8c49f9d9485b7f15547f082 Ruby-Versions: ruby1.8 ruby1.9.1 Section: ruby Priority: optional Filename: pool/main/r/ruby-bio/ruby-bio_1.4.2-3_all.deb Size: 862836 MD5sum: 8710c546d68d88d5316c62671867b012 SHA1: 0c2009c8bab3d5d66de710cf4d56c56245b21584 SHA256: 0a2056e4d9d527e88bfaadbec78317d5ca8e662b657ef67749581d77728cda49 [jessie] Package: ruby-bio Version: 1.4.3.0001-2 Installed-Size: 3195 Maintainer: Debian Ruby Extras Maintainers Architecture: all Depends: ruby | ruby-interpreter Recommends: blast2, hmmer, mafft, muscle, probcons, sim4, t-coffee Suggests: clustalw, emboss Description: Ruby tools for computational molecular biology Homepage: http://www.bioruby.org/ Description-md5: 9551e5ebe8c49f9d9485b7f15547f082 Ruby-Versions: ruby1.9.1 ruby2.0 Section: ruby Priority: optional Filename: pool/main/r/ruby-bio/ruby-bio_1.4.3.0001-2_all.deb Size: 721318 MD5sum: 4717d63891aad4e33281320efd7c3501 SHA1: 66b3547f0f4f815c648a79fa385044b20188623e SHA256: 6465dc6a324bec85b1c88c8b26a6be1c1f193b93c0c268aafa611cebbbee675f 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 --install-recommends --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --scriptsdir /etc/piuparts/scripts-jessie --warn-on-debsums-errors --warn-on-install-over-symlink -i /usr/lib/dbus-1.0/dbus-daemon-launch-helper --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 -d jessie -B reference-chroot-metadata.dat --apt ruby-bio=1.4.3.0001-2 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 0.87 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --scriptsdir /etc/piuparts/scripts-jessie --warn-on-debsums-errors --warn-on-install-over-symlink -i /usr/lib/dbus-1.0/dbus-daemon-launch-helper --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 -d jessie -B reference-chroot-metadata.dat --apt ruby-bio=1.4.3.0001-2 0m0.0s INFO: Running on: Linux piu-slave-bm-a 4.9.0-6-amd64 #1 SMP Debian 4.9.88-1+deb9u1 (2018-05-07) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpgmh0Dj 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpgmh0Dj 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz'] 0m2.7s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz'] 0m2.7s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/proc'] 0m2.7s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/proc'] 0m2.7s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/pts'] 0m2.7s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/pts'] 0m2.7s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/ptmx'] 0m2.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/ptmx'] 0m2.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/console'] 0m2.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/console'] 0m2.8s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/run/shm'] 0m2.8s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/run/shm'] 0m2.8s DEBUG: sources.list: deb http://mirror.bm.debian.org/debian/ wheezy main 0m3.3s DEBUG: Created policy-rc.d and chmodded it. 0m3.3s DEBUG: Created resolv.conf. 0m3.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpgmh0Dj/tmp/scripts/ 0m3.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts-jessie to /srv/piuparts.debian.org/tmp/tmpgmh0Dj/tmp/scripts/ 0m3.5s INFO: Running scripts post_chroot_unpack 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'update'] 0m6.4s 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... 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'update'] 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-yf', 'dist-upgrade'] 0m7.0s DUMP: Reading package lists... Building dependency tree... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-yf', 'dist-upgrade'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m7.5s DUMP: 0c96df6df725ee7ec7aebd2b6a77fb72 - 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m7.5s INFO: Running scripts post_setup 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_dummy_users'] 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_dummy_users'] 0m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_experimental'] 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_experimental'] 0m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_forbid_home'] 0m9.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_forbid_home'] 0m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_force-unsafe-io'] 0m9.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' `/bin/sync' -> `true' 0m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_force-unsafe-io'] 0m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_jessie-fake-essential'] 0m11.0s DUMP: *** Adding fake essential packages *** Reading package lists... Building dependency tree... The following NEW packages will be installed: ucf 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 70.8 kB of archives. After this operation, 236 kB of additional disk space will be used. Get:1 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 70.8 kB in 0s (2371 kB/s) Selecting previously unselected package ucf. (Reading database ... 6639 files and directories currently installed.) Unpacking ucf (from .../ucf_3.0025+nmu3_all.deb) ... Moving old data out of the way Setting up ucf (3.0025+nmu3) ... 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_jessie-fake-essential'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_minimize'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_minimize'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_squeeze-backports'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_squeeze-backports'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_zz_backports'] 0m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_setup_zz_backports'] 0m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m11.1s DUMP: 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 0m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m11.1s DEBUG: Loading chroot meta data from reference-chroot-metadata.dat 0m12.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 0m13.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 0m13.5s INFO: Running scripts is_testable 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/is_testable_uninstallable'] 0m13.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/is_testable_uninstallable'] 0m13.6s INFO: Running scripts pre_test 0m13.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_test_exceptions'] 0m13.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_test_exceptions'] 0m13.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_test_root_password'] 0m13.6s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m13.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_test_root_password'] 0m13.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'show', '--no-all-versions', 'ruby-bio'] 0m13.7s DUMP: Package: ruby-bio Version: 1.4.2-3 Installed-Size: 3141 Maintainer: Debian Ruby Extras Maintainers Architecture: all Replaces: libbio-ruby (<< 1.4.1-2~), libbio-ruby1.8 (<< 1.4.1-2~) Provides: libbio-ruby, libbio-ruby1.8 Depends: ruby | ruby-interpreter Recommends: blast2, hmmer, mafft, muscle, probcons, sim4, t-coffee Suggests: clustalw, emboss Breaks: libbio-ruby (<< 1.4.1-2~), libbio-ruby1.8 (<< 1.4.1-2~) Description-en: Ruby tools for computational molecular biology BioRuby project aims to implement an integrated environment for Bioinformatics with Ruby language. Design philosophy of the BioRuby library is KISS (keep it simple, stupid) to maximize the usability and the efficiency for biologists as a daily tool. The project was started in Japan and supported by University of Tokyo (Human Genome Center), Kyoto University (Bioinformatics Center) and the Open Bio Foundation. Homepage: http://www.bioruby.org/ Description-md5: 9551e5ebe8c49f9d9485b7f15547f082 Ruby-Versions: ruby1.8 ruby1.9.1 Section: ruby Priority: optional Filename: pool/main/r/ruby-bio/ruby-bio_1.4.2-3_all.deb Size: 862836 MD5sum: 8710c546d68d88d5316c62671867b012 SHA1: 0c2009c8bab3d5d66de710cf4d56c56245b21584 SHA256: 0a2056e4d9d527e88bfaadbec78317d5ca8e662b657ef67749581d77728cda49 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'show', '--no-all-versions', 'ruby-bio'] 0m13.7s INFO: apt-cache knows about the following packages: ruby-bio 0m13.7s INFO: Running scripts pre_install 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_database-server'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_database-server'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_exceptions'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_exceptions'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_extras'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_extras'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture'] 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy'] 0m13.8s 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: 0m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy'] 0m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy', 'ruby-bio'] 0m13.9s DUMP: ruby-bio: Installed: (none) Candidate: 1.4.2-3 Version table: 1.4.2-3 0 500 http://mirror.bm.debian.org/debian/ wheezy/main amd64 Packages 0m13.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy', 'ruby-bio'] 0m13.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-y', 'install', 'ruby-bio'] 0m32.1s DUMP: Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: blast2 ca-certificates file hmmer ifupdown iproute libatm1 libbsd0 libclass-inspector-perl libclass-isa-perl libconvert-binhex-perl libcrypt-ssleay-perl libencode-locale-perl libexpat1 libfcgi-perl libffi5 libfile-listing-perl libfont-afm-perl libgcrypt11 libgdbm3 libgfortran3 libgnutls26 libgpg-error0 libgpm2 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libidn11 libio-socket-ip-perl libio-socket-ssl-perl libio-stringy-perl liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libmailtools-perl libmime-tools-perl libncbi6 libncursesw5 libnet-http-perl libnet-ssleay-perl libossp-uuid-perl libossp-uuid16 libp11-kit0 libquadmath0 libruby1.9.1 libsoap-lite-perl libsocket-perl libssl1.0.0 libswitch-perl libtask-weaken-perl libtasn1-3 libtimedate-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-simple-perl libyaml-0-2 lynx lynx-cur mafft mime-support muscle ncbi-data netbase openssl perl perl-modules probcons ruby ruby1.9.1 sim4 t-coffee tm-align Suggested packages: libvibrant6a ncbi-rrna-data ncbi-tools-bin ncbi-tools-x11 hmmer-doc isc-dhcp-client dhcp-client ppp rdnssd net-tools iproute-doc rng-tools gpm libdata-dump-perl libmime-base64-perl uuid libapache2-mod-perl2 libmime-lite-perl libnet-jabber-perl libauthen-ntlm-perl perl-doc libterm-readline-gnu-perl libterm-readline-perl-perl make libpod-plainer-perl probcons-extra ri ruby-dev clustalw emboss ruby1.9.1-examples ri1.9.1 graphviz ruby1.9.1-dev ruby-switch boxshade seaview t-coffee-doc t-coffee-examples dialign-tx kalign poa amap-align proda pymol rasmol The following NEW packages will be installed: blast2 ca-certificates file hmmer ifupdown iproute libatm1 libbsd0 libclass-inspector-perl libclass-isa-perl libconvert-binhex-perl libcrypt-ssleay-perl libencode-locale-perl libexpat1 libfcgi-perl libffi5 libfile-listing-perl libfont-afm-perl libgcrypt11 libgdbm3 libgfortran3 libgnutls26 libgpg-error0 libgpm2 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libidn11 libio-socket-ip-perl libio-socket-ssl-perl libio-stringy-perl liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libmailtools-perl libmime-tools-perl libncbi6 libncursesw5 libnet-http-perl libnet-ssleay-perl libossp-uuid-perl libossp-uuid16 libp11-kit0 libquadmath0 libruby1.9.1 libsoap-lite-perl libsocket-perl libssl1.0.0 libswitch-perl libtask-weaken-perl libtasn1-3 libtimedate-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-simple-perl libyaml-0-2 lynx lynx-cur mafft mime-support muscle ncbi-data netbase openssl perl perl-modules probcons ruby ruby-bio ruby1.9.1 sim4 t-coffee tm-align 0 upgraded, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 40.0 MB of archives. After this operation, 131 MB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ wheezy/main iproute amd64 20120521-3+b3 [459 kB] Get:2 http://mirror.bm.debian.org/debian/ wheezy/main ifupdown amd64 0.7.8 [64.9 kB] Get:3 http://mirror.bm.debian.org/debian/ wheezy/main libgdbm3 amd64 1.8.3-11 [46.9 kB] Get:4 http://mirror.bm.debian.org/debian/ wheezy/main libncursesw5 amd64 5.9-10 [141 kB] Get:5 http://mirror.bm.debian.org/debian/ wheezy/main libssl1.0.0 amd64 1.0.1e-2+deb7u20 [1263 kB] Get:6 http://mirror.bm.debian.org/debian/ wheezy/main libgpg-error0 amd64 1.10-3.1 [77.9 kB] Get:7 http://mirror.bm.debian.org/debian/ wheezy/main libgcrypt11 amd64 1.5.0-5+deb7u4 [301 kB] Get:8 http://mirror.bm.debian.org/debian/ wheezy/main libp11-kit0 amd64 0.12-3 [52.8 kB] Get:9 http://mirror.bm.debian.org/debian/ wheezy/main libtasn1-3 amd64 2.13-2+deb7u2 [67.8 kB] Get:10 http://mirror.bm.debian.org/debian/ wheezy/main libgnutls26 amd64 2.12.20-8+deb7u5 [620 kB] Get:11 http://mirror.bm.debian.org/debian/ wheezy/main libgpm2 amd64 1.20.4-6 [35.8 kB] Get:12 http://mirror.bm.debian.org/debian/ wheezy/main libidn11 amd64 1.25-2 [178 kB] Get:13 http://mirror.bm.debian.org/debian/ wheezy/main libmagic1 amd64 5.11-2+deb7u8 [205 kB] Get:14 http://mirror.bm.debian.org/debian/ wheezy/main libatm1 amd64 1:2.5.1-1.5 [73.3 kB] Get:15 http://mirror.bm.debian.org/debian/ wheezy/main libbsd0 amd64 0.4.2-1 [59.3 kB] Get:16 http://mirror.bm.debian.org/debian/ wheezy/main libexpat1 amd64 2.1.0-1+deb7u2 [139 kB] Get:17 http://mirror.bm.debian.org/debian/ wheezy/main libffi5 amd64 3.0.10-3 [24.8 kB] Get:18 http://mirror.bm.debian.org/debian/ wheezy/main libquadmath0 amd64 4.7.2-5 [125 kB] Get:19 http://mirror.bm.debian.org/debian/ wheezy/main libgfortran3 amd64 4.7.2-5 [351 kB] Get:20 http://mirror.bm.debian.org/debian/ wheezy/main ncbi-data all 6.1.20120620-2 [5893 kB] Get:21 http://mirror.bm.debian.org/debian/ wheezy/main libncbi6 amd64 6.1.20120620-2 [4887 kB] Get:22 http://mirror.bm.debian.org/debian/ wheezy/main libyaml-0-2 amd64 0.1.4-2+deb7u5 [58.3 kB] Get:23 http://mirror.bm.debian.org/debian/ wheezy/main mafft amd64 6.864-1 [799 kB] Get:24 http://mirror.bm.debian.org/debian/ wheezy/main netbase all 5.0 [20.1 kB] Get:25 http://mirror.bm.debian.org/debian/ wheezy/main file amd64 5.11-2+deb7u8 [53.4 kB] Get:26 http://mirror.bm.debian.org/debian/ wheezy/main libclass-isa-perl all 0.36-3 [12.3 kB] Get:27 http://mirror.bm.debian.org/debian/ wheezy/main perl-modules all 5.14.2-21+deb7u3 [3444 kB] Get:28 http://mirror.bm.debian.org/debian/ wheezy/main perl amd64 5.14.2-21+deb7u3 [4429 kB] Get:29 http://mirror.bm.debian.org/debian/ wheezy/main libswitch-perl all 2.16-2 [21.0 kB] Get:30 http://mirror.bm.debian.org/debian/ wheezy/main mime-support all 3.52-1+deb7u1 [35.5 kB] Get:31 http://mirror.bm.debian.org/debian/ wheezy/main blast2 amd64 1:2.2.26.20120620-2 [682 kB] Get:32 http://mirror.bm.debian.org/debian/ wheezy/main openssl amd64 1.0.1e-2+deb7u20 [702 kB] Get:33 http://mirror.bm.debian.org/debian/ wheezy/main ca-certificates all 20130119+deb7u1 [210 kB] Get:34 http://mirror.bm.debian.org/debian/ wheezy/main hmmer amd64 3.0-4 [2217 kB] Get:35 http://mirror.bm.debian.org/debian/ wheezy/main libclass-inspector-perl all 1.27-1 [20.6 kB] Get:36 http://mirror.bm.debian.org/debian/ wheezy/main libconvert-binhex-perl all 1.119+pristine-3 [30.3 kB] Get:37 http://mirror.bm.debian.org/debian/ wheezy/main libcrypt-ssleay-perl amd64 0.58-1 [51.8 kB] Get:38 http://mirror.bm.debian.org/debian/ wheezy/main libencode-locale-perl all 1.03-1 [13.6 kB] Get:39 http://mirror.bm.debian.org/debian/ wheezy/main libfcgi-perl amd64 0.74-1+b1 [42.8 kB] Get:40 http://mirror.bm.debian.org/debian/ wheezy/main libtimedate-perl all 1.2000-1 [41.2 kB] Get:41 http://mirror.bm.debian.org/debian/ wheezy/main libhttp-date-perl all 6.02-1 [10.7 kB] Get:42 http://mirror.bm.debian.org/debian/ wheezy/main libfile-listing-perl all 6.04-1 [10.3 kB] Get:43 http://mirror.bm.debian.org/debian/ wheezy/main libfont-afm-perl all 1.20-1 [14.4 kB] Get:44 http://mirror.bm.debian.org/debian/ wheezy/main liburi-perl all 1.60-1 [100 kB] Get:45 http://mirror.bm.debian.org/debian/ wheezy/main libhtml-tagset-perl all 3.20-2 [13.5 kB] Get:46 http://mirror.bm.debian.org/debian/ wheezy/main libhtml-parser-perl amd64 3.69-2 [114 kB] Get:47 http://mirror.bm.debian.org/debian/ wheezy/main liblwp-mediatypes-perl all 6.02-1 [22.1 kB] Get:48 http://mirror.bm.debian.org/debian/ wheezy/main libhttp-message-perl all 6.03-1 [78.5 kB] Get:49 http://mirror.bm.debian.org/debian/ wheezy/main libhtml-form-perl all 6.03-1 [23.9 kB] Get:50 http://mirror.bm.debian.org/debian/ wheezy/main libhtml-tree-perl all 5.02-1 [225 kB] Get:51 http://mirror.bm.debian.org/debian/ wheezy/main libhtml-format-perl all 2.10-1 [42.1 kB] Get:52 http://mirror.bm.debian.org/debian/ wheezy/main libhttp-cookies-perl all 6.00-2 [23.5 kB] Get:53 http://mirror.bm.debian.org/debian/ wheezy/main libhttp-daemon-perl all 6.01-1 [17.3 kB] Get:54 http://mirror.bm.debian.org/debian/ wheezy/main libhttp-negotiate-perl all 6.00-2 [13.6 kB] Get:55 http://mirror.bm.debian.org/debian/ wheezy/main libsocket-perl amd64 2.002-1 [40.0 kB] Get:56 http://mirror.bm.debian.org/debian/ wheezy/main libio-socket-ip-perl all 0.16-2 [23.6 kB] Get:57 http://mirror.bm.debian.org/debian/ wheezy/main libnet-ssleay-perl amd64 1.48-1+b1 [335 kB] Get:58 http://mirror.bm.debian.org/debian/ wheezy/main libio-socket-ssl-perl all 1.76-2 [68.0 kB] Get:59 http://mirror.bm.debian.org/debian/ wheezy/main libio-stringy-perl all 2.110-5 [98.3 kB] Get:60 http://mirror.bm.debian.org/debian/ wheezy/main libnet-http-perl all 6.03-2 [24.3 kB] Get:61 http://mirror.bm.debian.org/debian/ wheezy/main libwww-robotrules-perl all 6.01-1 [14.3 kB] Get:62 http://mirror.bm.debian.org/debian/ wheezy/main libwww-perl all 6.04-1 [203 kB] Get:63 http://mirror.bm.debian.org/debian/ wheezy/main liblwp-protocol-https-perl all 6.03-1 [7580 B] Get:64 http://mirror.bm.debian.org/debian/ wheezy/main libmailtools-perl all 2.09-1 [97.6 kB] Get:65 http://mirror.bm.debian.org/debian/ wheezy/main libmime-tools-perl all 5.503-1 [242 kB] Get:66 http://mirror.bm.debian.org/debian/ wheezy/main libossp-uuid16 amd64 1.6.2-1.3 [58.8 kB] Get:67 http://mirror.bm.debian.org/debian/ wheezy/main libossp-uuid-perl amd64 1.6.2-1.3 [31.6 kB] Get:68 http://mirror.bm.debian.org/debian/ wheezy/main libruby1.9.1 amd64 1.9.3.194-8.1+deb7u5 [4414 kB] Get:69 http://mirror.bm.debian.org/debian/ wheezy/main libtask-weaken-perl all 1.03-1 [7690 B] Get:70 http://mirror.bm.debian.org/debian/ wheezy/main libxml-parser-perl amd64 2.41-1+b1 [278 kB] Get:71 http://mirror.bm.debian.org/debian/ wheezy/main libsoap-lite-perl all 0.714-1 [343 kB] Get:72 http://mirror.bm.debian.org/debian/ wheezy/main libxml-namespacesupport-perl all 1.09-3 [15.3 kB] Get:73 http://mirror.bm.debian.org/debian/ wheezy/main libxml-sax-base-perl all 1.07-1 [23.1 kB] Get:74 http://mirror.bm.debian.org/debian/ wheezy/main libxml-sax-perl all 0.99+dfsg-2 [68.3 kB] Get:75 http://mirror.bm.debian.org/debian/ wheezy/main libxml-sax-expat-perl all 0.40-2 [12.9 kB] Get:76 http://mirror.bm.debian.org/debian/ wheezy/main libxml-simple-perl all 2.20-1 [74.7 kB] Get:77 http://mirror.bm.debian.org/debian/ wheezy/main muscle amd64 1:3.8.31-1 [169 kB] Get:78 http://mirror.bm.debian.org/debian/ wheezy/main probcons amd64 1.12-9 [196 kB] Get:79 http://mirror.bm.debian.org/debian/ wheezy/main ruby1.9.1 amd64 1.9.3.194-8.1+deb7u5 [209 kB] Get:80 http://mirror.bm.debian.org/debian/ wheezy/main ruby all 1:1.9.3 [6484 B] Get:81 http://mirror.bm.debian.org/debian/ wheezy/main ruby-bio all 1.4.2-3 [863 kB] Get:82 http://mirror.bm.debian.org/debian/ wheezy/main sim4 amd64 0.0.20030921-3 [54.7 kB] Get:83 http://mirror.bm.debian.org/debian/ wheezy/main t-coffee amd64 9.02.r1228-2 [848 kB] Get:84 http://mirror.bm.debian.org/debian/ wheezy/main tm-align amd64 20120507-1 [62.9 kB] Get:85 http://mirror.bm.debian.org/debian/ wheezy/main lynx-cur amd64 2.8.8dev.12-2 [2249 kB] Get:86 http://mirror.bm.debian.org/debian/ wheezy/main lynx all 2.8.8dev.12-2 [223 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 40.0 MB in 3s (12.8 MB/s) Selecting previously unselected package iproute. (Reading database ... 6657 files and directories currently installed.) Unpacking iproute (from .../iproute_20120521-3+b3_amd64.deb) ... Selecting previously unselected package ifupdown. Unpacking ifupdown (from .../ifupdown_0.7.8_amd64.deb) ... Selecting previously unselected package libgdbm3:amd64. Unpacking libgdbm3:amd64 (from .../libgdbm3_1.8.3-11_amd64.deb) ... Selecting previously unselected package libncursesw5:amd64. Unpacking libncursesw5:amd64 (from .../libncursesw5_5.9-10_amd64.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 libgpg-error0:amd64. Unpacking libgpg-error0:amd64 (from .../libgpg-error0_1.10-3.1_amd64.deb) ... Selecting previously unselected package libgcrypt11:amd64. Unpacking libgcrypt11:amd64 (from .../libgcrypt11_1.5.0-5+deb7u4_amd64.deb) ... Selecting previously unselected package libp11-kit0:amd64. Unpacking libp11-kit0:amd64 (from .../libp11-kit0_0.12-3_amd64.deb) ... Selecting previously unselected package libtasn1-3:amd64. Unpacking libtasn1-3:amd64 (from .../libtasn1-3_2.13-2+deb7u2_amd64.deb) ... Selecting previously unselected package libgnutls26:amd64. Unpacking libgnutls26:amd64 (from .../libgnutls26_2.12.20-8+deb7u5_amd64.deb) ... Selecting previously unselected package libgpm2:amd64. Unpacking libgpm2:amd64 (from .../libgpm2_1.20.4-6_amd64.deb) ... Selecting previously unselected package libidn11:amd64. Unpacking libidn11:amd64 (from .../libidn11_1.25-2_amd64.deb) ... Selecting previously unselected package libmagic1:amd64. Unpacking libmagic1:amd64 (from .../libmagic1_5.11-2+deb7u8_amd64.deb) ... Selecting previously unselected package libatm1:amd64. Unpacking libatm1:amd64 (from .../libatm1_1%3a2.5.1-1.5_amd64.deb) ... Selecting previously unselected package libbsd0:amd64. Unpacking libbsd0:amd64 (from .../libbsd0_0.4.2-1_amd64.deb) ... Selecting previously unselected package libexpat1:amd64. Unpacking libexpat1:amd64 (from .../libexpat1_2.1.0-1+deb7u2_amd64.deb) ... Selecting previously unselected package libffi5:amd64. Unpacking libffi5:amd64 (from .../libffi5_3.0.10-3_amd64.deb) ... Selecting previously unselected package libquadmath0:amd64. Unpacking libquadmath0:amd64 (from .../libquadmath0_4.7.2-5_amd64.deb) ... Selecting previously unselected package libgfortran3:amd64. Unpacking libgfortran3:amd64 (from .../libgfortran3_4.7.2-5_amd64.deb) ... Selecting previously unselected package ncbi-data. Unpacking ncbi-data (from .../ncbi-data_6.1.20120620-2_all.deb) ... Selecting previously unselected package libncbi6:amd64. Unpacking libncbi6:amd64 (from .../libncbi6_6.1.20120620-2_amd64.deb) ... Selecting previously unselected package libyaml-0-2:amd64. Unpacking libyaml-0-2:amd64 (from .../libyaml-0-2_0.1.4-2+deb7u5_amd64.deb) ... Selecting previously unselected package mafft. Unpacking mafft (from .../mafft_6.864-1_amd64.deb) ... Selecting previously unselected package netbase. Unpacking netbase (from .../archives/netbase_5.0_all.deb) ... Selecting previously unselected package file. Unpacking file (from .../file_5.11-2+deb7u8_amd64.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 perl. Unpacking perl (from .../perl_5.14.2-21+deb7u3_amd64.deb) ... Selecting previously unselected package libswitch-perl. Unpacking libswitch-perl (from .../libswitch-perl_2.16-2_all.deb) ... Selecting previously unselected package mime-support. Unpacking mime-support (from .../mime-support_3.52-1+deb7u1_all.deb) ... Selecting previously unselected package blast2. Unpacking blast2 (from .../blast2_1%3a2.2.26.20120620-2_amd64.deb) ... Selecting previously unselected package openssl. Unpacking openssl (from .../openssl_1.0.1e-2+deb7u20_amd64.deb) ... Selecting previously unselected package ca-certificates. Unpacking ca-certificates (from .../ca-certificates_20130119+deb7u1_all.deb) ... Selecting previously unselected package hmmer. Unpacking hmmer (from .../archives/hmmer_3.0-4_amd64.deb) ... Selecting previously unselected package libclass-inspector-perl. Unpacking libclass-inspector-perl (from .../libclass-inspector-perl_1.27-1_all.deb) ... Selecting previously unselected package libconvert-binhex-perl. Unpacking libconvert-binhex-perl (from .../libconvert-binhex-perl_1.119+pristine-3_all.deb) ... Selecting previously unselected package libcrypt-ssleay-perl. Unpacking libcrypt-ssleay-perl (from .../libcrypt-ssleay-perl_0.58-1_amd64.deb) ... Selecting previously unselected package libencode-locale-perl. Unpacking libencode-locale-perl (from .../libencode-locale-perl_1.03-1_all.deb) ... Selecting previously unselected package libfcgi-perl. Unpacking libfcgi-perl (from .../libfcgi-perl_0.74-1+b1_amd64.deb) ... Selecting previously unselected package libtimedate-perl. Unpacking libtimedate-perl (from .../libtimedate-perl_1.2000-1_all.deb) ... Selecting previously unselected package libhttp-date-perl. Unpacking libhttp-date-perl (from .../libhttp-date-perl_6.02-1_all.deb) ... Selecting previously unselected package libfile-listing-perl. Unpacking libfile-listing-perl (from .../libfile-listing-perl_6.04-1_all.deb) ... Selecting previously unselected package libfont-afm-perl. Unpacking libfont-afm-perl (from .../libfont-afm-perl_1.20-1_all.deb) ... Selecting previously unselected package liburi-perl. Unpacking liburi-perl (from .../liburi-perl_1.60-1_all.deb) ... Selecting previously unselected package libhtml-tagset-perl. Unpacking libhtml-tagset-perl (from .../libhtml-tagset-perl_3.20-2_all.deb) ... Selecting previously unselected package libhtml-parser-perl. Unpacking libhtml-parser-perl (from .../libhtml-parser-perl_3.69-2_amd64.deb) ... Selecting previously unselected package liblwp-mediatypes-perl. Unpacking liblwp-mediatypes-perl (from .../liblwp-mediatypes-perl_6.02-1_all.deb) ... Selecting previously unselected package libhttp-message-perl. Unpacking libhttp-message-perl (from .../libhttp-message-perl_6.03-1_all.deb) ... Selecting previously unselected package libhtml-form-perl. Unpacking libhtml-form-perl (from .../libhtml-form-perl_6.03-1_all.deb) ... Selecting previously unselected package libhtml-tree-perl. Unpacking libhtml-tree-perl (from .../libhtml-tree-perl_5.02-1_all.deb) ... Selecting previously unselected package libhtml-format-perl. Unpacking libhtml-format-perl (from .../libhtml-format-perl_2.10-1_all.deb) ... Selecting previously unselected package libhttp-cookies-perl. Unpacking libhttp-cookies-perl (from .../libhttp-cookies-perl_6.00-2_all.deb) ... Selecting previously unselected package libhttp-daemon-perl. Unpacking libhttp-daemon-perl (from .../libhttp-daemon-perl_6.01-1_all.deb) ... Selecting previously unselected package libhttp-negotiate-perl. Unpacking libhttp-negotiate-perl (from .../libhttp-negotiate-perl_6.00-2_all.deb) ... Selecting previously unselected package libsocket-perl. Unpacking libsocket-perl (from .../libsocket-perl_2.002-1_amd64.deb) ... Selecting previously unselected package libio-socket-ip-perl. Unpacking libio-socket-ip-perl (from .../libio-socket-ip-perl_0.16-2_all.deb) ... Selecting previously unselected package libnet-ssleay-perl. Unpacking libnet-ssleay-perl (from .../libnet-ssleay-perl_1.48-1+b1_amd64.deb) ... Selecting previously unselected package libio-socket-ssl-perl. Unpacking libio-socket-ssl-perl (from .../libio-socket-ssl-perl_1.76-2_all.deb) ... Selecting previously unselected package libio-stringy-perl. Unpacking libio-stringy-perl (from .../libio-stringy-perl_2.110-5_all.deb) ... Selecting previously unselected package libnet-http-perl. Unpacking libnet-http-perl (from .../libnet-http-perl_6.03-2_all.deb) ... Selecting previously unselected package libwww-robotrules-perl. Unpacking libwww-robotrules-perl (from .../libwww-robotrules-perl_6.01-1_all.deb) ... Selecting previously unselected package libwww-perl. Unpacking libwww-perl (from .../libwww-perl_6.04-1_all.deb) ... Selecting previously unselected package liblwp-protocol-https-perl. Unpacking liblwp-protocol-https-perl (from .../liblwp-protocol-https-perl_6.03-1_all.deb) ... Selecting previously unselected package libmailtools-perl. Unpacking libmailtools-perl (from .../libmailtools-perl_2.09-1_all.deb) ... Selecting previously unselected package libmime-tools-perl. Unpacking libmime-tools-perl (from .../libmime-tools-perl_5.503-1_all.deb) ... Selecting previously unselected package libossp-uuid16. Unpacking libossp-uuid16 (from .../libossp-uuid16_1.6.2-1.3_amd64.deb) ... Selecting previously unselected package libossp-uuid-perl. Unpacking libossp-uuid-perl (from .../libossp-uuid-perl_1.6.2-1.3_amd64.deb) ... Selecting previously unselected package libruby1.9.1. Unpacking libruby1.9.1 (from .../libruby1.9.1_1.9.3.194-8.1+deb7u5_amd64.deb) ... Selecting previously unselected package libtask-weaken-perl. Unpacking libtask-weaken-perl (from .../libtask-weaken-perl_1.03-1_all.deb) ... Selecting previously unselected package libxml-parser-perl. Unpacking libxml-parser-perl (from .../libxml-parser-perl_2.41-1+b1_amd64.deb) ... Selecting previously unselected package libsoap-lite-perl. Unpacking libsoap-lite-perl (from .../libsoap-lite-perl_0.714-1_all.deb) ... Selecting previously unselected package libxml-namespacesupport-perl. Unpacking libxml-namespacesupport-perl (from .../libxml-namespacesupport-perl_1.09-3_all.deb) ... Selecting previously unselected package libxml-sax-base-perl. Unpacking libxml-sax-base-perl (from .../libxml-sax-base-perl_1.07-1_all.deb) ... Selecting previously unselected package libxml-sax-perl. Unpacking libxml-sax-perl (from .../libxml-sax-perl_0.99+dfsg-2_all.deb) ... Selecting previously unselected package libxml-sax-expat-perl. Unpacking libxml-sax-expat-perl (from .../libxml-sax-expat-perl_0.40-2_all.deb) ... Selecting previously unselected package libxml-simple-perl. Unpacking libxml-simple-perl (from .../libxml-simple-perl_2.20-1_all.deb) ... Selecting previously unselected package muscle. Unpacking muscle (from .../muscle_1%3a3.8.31-1_amd64.deb) ... Selecting previously unselected package probcons. Unpacking probcons (from .../probcons_1.12-9_amd64.deb) ... Selecting previously unselected package ruby1.9.1. Unpacking ruby1.9.1 (from .../ruby1.9.1_1.9.3.194-8.1+deb7u5_amd64.deb) ... Selecting previously unselected package ruby. Unpacking ruby (from .../ruby_1%3a1.9.3_all.deb) ... Selecting previously unselected package ruby-bio. Unpacking ruby-bio (from .../ruby-bio_1.4.2-3_all.deb) ... Selecting previously unselected package sim4. Unpacking sim4 (from .../sim4_0.0.20030921-3_amd64.deb) ... Selecting previously unselected package t-coffee. Unpacking t-coffee (from .../t-coffee_9.02.r1228-2_amd64.deb) ... Selecting previously unselected package tm-align. Unpacking tm-align (from .../tm-align_20120507-1_amd64.deb) ... Selecting previously unselected package lynx-cur. Unpacking lynx-cur (from .../lynx-cur_2.8.8dev.12-2_amd64.deb) ... Selecting previously unselected package lynx. Unpacking lynx (from .../lynx_2.8.8dev.12-2_all.deb) ... Setting up iproute (20120521-3+b3) ... Setting up ifupdown (0.7.8) ... Creating /etc/network/interfaces. Setting up libgdbm3:amd64 (1.8.3-11) ... Setting up libncursesw5:amd64 (5.9-10) ... Setting up libssl1.0.0:amd64 (1.0.1e-2+deb7u20) ... Setting up libgpg-error0:amd64 (1.10-3.1) ... Setting up libgcrypt11:amd64 (1.5.0-5+deb7u4) ... Setting up libp11-kit0:amd64 (0.12-3) ... Setting up libtasn1-3:amd64 (2.13-2+deb7u2) ... Setting up libgnutls26:amd64 (2.12.20-8+deb7u5) ... Setting up libgpm2:amd64 (1.20.4-6) ... Setting up libidn11:amd64 (1.25-2) ... Setting up libmagic1:amd64 (5.11-2+deb7u8) ... Setting up libatm1:amd64 (1:2.5.1-1.5) ... Setting up libbsd0:amd64 (0.4.2-1) ... Setting up libexpat1:amd64 (2.1.0-1+deb7u2) ... Setting up libffi5:amd64 (3.0.10-3) ... Setting up libquadmath0:amd64 (4.7.2-5) ... Setting up libgfortran3:amd64 (4.7.2-5) ... Setting up ncbi-data (6.1.20120620-2) ... Setting up libncbi6:amd64 (6.1.20120620-2) ... Setting up libyaml-0-2:amd64 (0.1.4-2+deb7u5) ... Setting up mafft (6.864-1) ... Setting up netbase (5.0) ... Setting up file (5.11-2+deb7u8) ... Setting up libclass-isa-perl (0.36-3) ... 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 blast2 (1:2.2.26.20120620-2) ... Setting up openssl (1.0.1e-2+deb7u20) ... Setting up ca-certificates (20130119+deb7u1) ... Setting up hmmer (3.0-4) ... Setting up libossp-uuid16 (1.6.2-1.3) ... Setting up libruby1.9.1 (1.9.3.194-8.1+deb7u5) ... Setting up muscle (1:3.8.31-1) ... Setting up probcons (1.12-9) ... Setting up ruby1.9.1 (1.9.3.194-8.1+deb7u5) ... update-alternatives: using /usr/bin/gem1.9.1 to provide /usr/bin/gem (gem) in auto mode update-alternatives: using /usr/bin/ruby1.9.1 to provide /usr/bin/ruby (ruby) in auto mode Setting up ruby (1:1.9.3) ... Setting up ruby-bio (1.4.2-3) ... Setting up sim4 (0.0.20030921-3) ... Setting up t-coffee (9.02.r1228-2) ... Setting up tm-align (20120507-1) ... Setting up lynx-cur (2.8.8dev.12-2) ... update-alternatives: using /usr/bin/lynx to provide /usr/bin/www-browser (www-browser) in auto mode Setting up lynx (2.8.8dev.12-2) ... Setting up libswitch-perl (2.16-2) ... 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 libclass-inspector-perl (1.27-1) ... Setting up libconvert-binhex-perl (1.119+pristine-3) ... Setting up libcrypt-ssleay-perl (0.58-1) ... Setting up libencode-locale-perl (1.03-1) ... Setting up libfcgi-perl (0.74-1+b1) ... Setting up libtimedate-perl (1.2000-1) ... Setting up libhttp-date-perl (6.02-1) ... Setting up libfile-listing-perl (6.04-1) ... Setting up libfont-afm-perl (1.20-1) ... Setting up liburi-perl (1.60-1) ... Setting up libhtml-tagset-perl (3.20-2) ... Setting up libhtml-parser-perl (3.69-2) ... Setting up liblwp-mediatypes-perl (6.02-1) ... Setting up libhttp-message-perl (6.03-1) ... Setting up libhtml-form-perl (6.03-1) ... Setting up libhtml-tree-perl (5.02-1) ... Setting up libhtml-format-perl (2.10-1) ... Setting up libhttp-cookies-perl (6.00-2) ... Setting up libhttp-daemon-perl (6.01-1) ... Setting up libhttp-negotiate-perl (6.00-2) ... Setting up libsocket-perl (2.002-1) ... Setting up libio-socket-ip-perl (0.16-2) ... Setting up libnet-ssleay-perl (1.48-1+b1) ... Setting up libio-socket-ssl-perl (1.76-2) ... Setting up libio-stringy-perl (2.110-5) ... Setting up libnet-http-perl (6.03-2) ... Setting up libwww-robotrules-perl (6.01-1) ... Setting up liblwp-protocol-https-perl (6.03-1) ... Setting up libmailtools-perl (2.09-1) ... Setting up libmime-tools-perl (5.503-1) ... Setting up libossp-uuid-perl (1.6.2-1.3) ... Setting up libtask-weaken-perl (1.03-1) ... Setting up libxml-namespacesupport-perl (1.09-3) ... Setting up libxml-sax-base-perl (1.07-1) ... Setting up libxml-sax-perl (0.99+dfsg-2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libwww-perl (6.04-1) ... Setting up libxml-parser-perl (2.41-1+b1) ... Setting up libsoap-lite-perl (0.714-1) ... Setting up libxml-sax-expat-perl (0.40-2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::Expat with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libxml-simple-perl (2.20-1) ... Processing triggers for ca-certificates ... Updating certificates in /etc/ssl/certs... 171 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d....done. 0m32.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-y', 'install', 'ruby-bio'] 0m32.1s INFO: Running scripts post_install 0m32.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_install_exceptions'] 0m32.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_install_exceptions'] 0m32.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 0m34.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 0m34.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpgmh0Dj to jessie 0m34.2s DEBUG: sources.list: deb http://mirror.bm.debian.org/debian/ jessie main 0m34.2s INFO: Running scripts pre_distupgrade 0m34.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_exceptions'] 0m34.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_exceptions'] 0m34.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m34.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m34.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m34.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m34.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m34.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m34.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'update'] 0m39.1s DUMP: Get:1 http://mirror.bm.debian.org jessie Release.gpg [2434 B] Get:2 http://mirror.bm.debian.org jessie Release [148 kB] Get:3 http://mirror.bm.debian.org jessie/main amd64 Packages [6789 kB] Get:4 http://mirror.bm.debian.org jessie/main Translation-en [4583 kB] Fetched 11.5 MB in 2s (4124 kB/s) Reading package lists... 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'update'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-yf', 'dist-upgrade'] 1m39.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: gcc-4.7-base The following NEW packages will be installed: acl adduser amap-align clustalo clustalw dbus dialign-tx dialign-tx-data dmsetup gcc-4.9-base init iproute2 isc-dhcp-client isc-dhcp-common javascript-common kalign libalgorithm-c3-perl libarchive-extract-perl libargtable2-0 libaudit-common libaudit1 libauthen-sasl-perl libcap-ng0 libcap2 libcap2-bin libcgi-fast-perl libcgi-pm-perl libclass-c3-perl libclass-c3-xs-perl libcpan-meta-perl libcryptsetup4 libdata-optlist-perl libdata-section-perl libdb5.3 libdbus-1-3 libdebconfclient0 libdevmapper1.02.1 libdns-export100 libffi6 libgcrypt20 libgmp10 libgnutls-deb0-28 libgomp1 libhogweed2 libio-html-perl libio-sessiondata-perl libirs-export91 libisc-export95 libisccfg-export90 libjs-jquery libkmod2 liblog-message-perl liblog-message-simple-perl libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libmro-compat-perl libnet-smtp-ssl-perl libnettle4 libpackage-constants-perl libpam-cap libpam-systemd libparams-util-perl libpcre3 libpod-latex-perl libpod-readme-perl libprocps3 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libregexp-common-perl libruby2.1 libsmartcols1 libsoftware-license-perl libsqlite3-0 libsub-exporter-perl libsub-install-perl libsystemd0 libtasn1-6 libterm-ui-perl libtext-soundex-perl libtext-template-perl libudev1 libxmlrpc-lite-perl libxtables10 mustang ncbi-blast+ poa prank procps proda psmisc python python-minimal python2.7 python2.7-minimal rename ruby2.1 rubygems-integration startpar systemd systemd-sysv udev The following packages will be upgraded: apt base-files base-passwd bash blast2 bsdutils ca-certificates coreutils dash debconf debconf-i18n debian-archive-keyring debianutils diffutils dpkg e2fslibs e2fsprogs file findutils gnupg gpgv grep gzip hmmer hostname ifupdown initscripts iproute libacl1 libapt-pkg4.12 libattr1 libblkid1 libbsd0 libbz2-1.0 libc-bin libc6 libclass-inspector-perl libclass-isa-perl libcomerr2 libconvert-binhex-perl libcrypt-ssleay-perl libexpat1 libfcgi-perl libgcc1 libgdbm3 libgfortran3 libgpg-error0 libgpm2 libhtml-format-perl libhtml-parser-perl libhtml-tree-perl libhttp-cookies-perl libhttp-message-perl libidn11 libio-socket-ip-perl libio-socket-ssl-perl liblocale-gettext-perl liblwp-protocol-https-perl liblzma5 libmagic1 libmailtools-perl libmime-tools-perl libmount1 libncbi6 libncurses5 libncursesw5 libnet-http-perl libnet-ssleay-perl libossp-uuid-perl libossp-uuid16 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libquadmath0 libreadline6 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsoap-lite-perl libsocket-perl libss2 libssl1.0.0 libstdc++6 libswitch-perl libtask-weaken-perl libtext-charwidth-perl libtext-iconv-perl libtimedate-perl libtinfo5 liburi-perl libusb-0.1-4 libustr-1.0-1 libuuid1 libwww-perl libxml-namespacesupport-perl libxml-parser-perl libyaml-0-2 login lsb-base lynx lynx-cur mafft mime-support mount multiarch-support ncbi-data ncurses-base ncurses-bin netbase openssl passwd perl perl-base perl-modules readline-common ruby ruby-bio sed sensible-utils sim4 sysv-rc sysvinit sysvinit-utils t-coffee tar tm-align tzdata ucf util-linux xz-utils zlib1g 135 upgraded, 103 newly installed, 1 to remove and 0 not upgraded. Need to get 83.3 MB of archives. After this operation, 129 MB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ jessie/main libc6 amd64 2.19-18+deb8u10 [4665 kB] Get:2 http://mirror.bm.debian.org/debian/ jessie/main libc-bin amd64 2.19-18+deb8u10 [1281 kB] Get:3 http://mirror.bm.debian.org/debian/ jessie/main gcc-4.9-base amd64 4.9.2-10 [160 kB] Get:4 http://mirror.bm.debian.org/debian/ jessie/main libstdc++6 amd64 4.9.2-10 [273 kB] Get:5 http://mirror.bm.debian.org/debian/ jessie/main libgfortran3 amd64 4.9.2-10 [255 kB] Get:6 http://mirror.bm.debian.org/debian/ jessie/main libgcc1 amd64 1:4.9.2-10 [39.5 kB] Get:7 http://mirror.bm.debian.org/debian/ jessie/main libquadmath0 amd64 4.9.2-10 [129 kB] Get:8 http://mirror.bm.debian.org/debian/ jessie/main base-files amd64 8+deb8u10 [78.2 kB] Get:9 http://mirror.bm.debian.org/debian/ jessie/main sensible-utils all 0.0.9 [11.3 kB] Get:10 http://mirror.bm.debian.org/debian/ jessie/main debianutils amd64 4.4+b1 [99.1 kB] Get:11 http://mirror.bm.debian.org/debian/ jessie/main bash amd64 4.3-11+deb8u1 [1172 kB] Get:12 http://mirror.bm.debian.org/debian/ jessie/main libgpg-error0 amd64 1.17-3 [94.9 kB] Get:13 http://mirror.bm.debian.org/debian/ jessie/main libgcrypt20 amd64 1.6.3-2+deb8u4 [392 kB] Get:14 http://mirror.bm.debian.org/debian/ jessie/main libsystemd0 amd64 215-17+deb8u7 [89.4 kB] Get:15 http://mirror.bm.debian.org/debian/ jessie/main bsdutils amd64 1:2.25.2-6 [94.0 kB] Get:16 http://mirror.bm.debian.org/debian/ jessie/main libpcre3 amd64 2:8.35-3.3+deb8u4 [322 kB] Get:17 http://mirror.bm.debian.org/debian/ jessie/main libselinux1 amd64 2.3-2 [89.8 kB] Get:18 http://mirror.bm.debian.org/debian/ jessie/main coreutils amd64 8.23-4 [2727 kB] Get:19 http://mirror.bm.debian.org/debian/ jessie/main dpkg amd64 1.17.27 [2994 kB] Get:20 http://mirror.bm.debian.org/debian/ jessie/main dash amd64 0.5.7-4+b1 [109 kB] Get:21 http://mirror.bm.debian.org/debian/ jessie/main diffutils amd64 1:3.3-1+b1 [267 kB] Get:22 http://mirror.bm.debian.org/debian/ jessie/main e2fslibs amd64 1.42.12-2+b1 [186 kB] Get:23 http://mirror.bm.debian.org/debian/ jessie/main e2fsprogs amd64 1.42.12-2+b1 [750 kB] Get:24 http://mirror.bm.debian.org/debian/ jessie/main findutils amd64 4.4.2-9+b1 [485 kB] Get:25 http://mirror.bm.debian.org/debian/ jessie/main grep amd64 2.20-4.1 [325 kB] Get:26 http://mirror.bm.debian.org/debian/ jessie/main gzip amd64 1.6-4 [111 kB] Get:27 http://mirror.bm.debian.org/debian/ jessie/main hostname amd64 3.15 [13.9 kB] Get:28 http://mirror.bm.debian.org/debian/ jessie/main libaudit-common all 1:2.4-1 [13.5 kB] Get:29 http://mirror.bm.debian.org/debian/ jessie/main libaudit1 amd64 1:2.4-1+b1 [44.7 kB] Get:30 http://mirror.bm.debian.org/debian/ jessie/main libattr1 amd64 1:2.4.47-2 [18.3 kB] Get:31 http://mirror.bm.debian.org/debian/ jessie/main libcap2 amd64 1:2.24-8 [15.3 kB] Get:32 http://mirror.bm.debian.org/debian/ jessie/main libudev1 amd64 215-17+deb8u7 [57.8 kB] Get:33 http://mirror.bm.debian.org/debian/ jessie/main libdb5.3 amd64 5.3.28-9+deb8u1 [680 kB] Get:34 http://mirror.bm.debian.org/debian/ jessie/main iproute all 1:3.16.0-2 [15.5 kB] Get:35 http://mirror.bm.debian.org/debian/ jessie/main iproute2 amd64 3.16.0-2 [426 kB] Get:36 http://mirror.bm.debian.org/debian/ jessie/main adduser all 3.113+nmu3 [264 kB] Get:37 http://mirror.bm.debian.org/debian/ jessie/main startpar amd64 0.59-3 [21.8 kB] Get:38 http://mirror.bm.debian.org/debian/ jessie/main sysvinit-utils amd64 2.88dsf-59 [84.4 kB] Get:39 http://mirror.bm.debian.org/debian/ jessie/main sysv-rc all 2.88dsf-59 [82.8 kB] Get:40 http://mirror.bm.debian.org/debian/ jessie/main libmount1 amd64 2.25.2-6 [164 kB] Get:41 http://mirror.bm.debian.org/debian/ jessie/main libsmartcols1 amd64 2.25.2-6 [110 kB] Get:42 http://mirror.bm.debian.org/debian/ jessie/main mount amd64 2.25.2-6 [168 kB] Get:43 http://mirror.bm.debian.org/debian/ jessie/main lsb-base all 4.1+Debian13+nmu1 [26.7 kB] Get:44 http://mirror.bm.debian.org/debian/ jessie/main netbase all 5.3 [19.0 kB] Get:45 http://mirror.bm.debian.org/debian/ jessie/main ifupdown amd64 0.7.53.1 [67.2 kB] Get:46 http://mirror.bm.debian.org/debian/ jessie/main initscripts amd64 2.88dsf-59 [87.2 kB] Get:47 http://mirror.bm.debian.org/debian/ jessie/main perl amd64 5.20.2-3+deb8u9 [2641 kB] Get:48 http://mirror.bm.debian.org/debian/ jessie/main libio-socket-ip-perl all 0.32-1 [28.1 kB] Get:49 http://mirror.bm.debian.org/debian/ jessie/main libsocket-perl amd64 2.016-1 [37.2 kB] Get:50 http://mirror.bm.debian.org/debian/ jessie/main libtext-charwidth-perl amd64 0.04-7+b3 [10.7 kB] Get:51 http://mirror.bm.debian.org/debian/ jessie/main libhtml-parser-perl amd64 3.71-1+b3 [109 kB] Get:52 http://mirror.bm.debian.org/debian/ jessie/main perl-base amd64 5.20.2-3+deb8u9 [1226 kB] Get:53 http://mirror.bm.debian.org/debian/ jessie/main liblocale-gettext-perl amd64 1.05-8+b1 [19.0 kB] Get:54 http://mirror.bm.debian.org/debian/ jessie/main libnet-ssleay-perl amd64 1.65-1+deb8u1 [277 kB] Get:55 http://mirror.bm.debian.org/debian/ jessie/main libtext-iconv-perl amd64 1.7-5+b2 [16.2 kB] Get:56 http://mirror.bm.debian.org/debian/ jessie/main libcrypt-ssleay-perl amd64 0.58-1+b2 [45.8 kB] Get:57 http://mirror.bm.debian.org/debian/ jessie/main libossp-uuid-perl amd64 1.6.2-1.5+b1 [30.2 kB] Get:58 http://mirror.bm.debian.org/debian/ jessie/main libfcgi-perl amd64 0.77-1+deb8u1 [39.0 kB] Get:59 http://mirror.bm.debian.org/debian/ jessie/main libxml-parser-perl amd64 2.41-3 [215 kB] Get:60 http://mirror.bm.debian.org/debian/ jessie/main perl-modules all 5.20.2-3+deb8u9 [2553 kB] Get:61 http://mirror.bm.debian.org/debian/ jessie/main libbz2-1.0 amd64 1.0.6-7+b3 [43.5 kB] Get:62 http://mirror.bm.debian.org/debian/ jessie/main libgdbm3 amd64 1.8.3-13.1 [30.0 kB] Get:63 http://mirror.bm.debian.org/debian/ jessie/main zlib1g amd64 1:1.2.8.dfsg-2+b1 [88.8 kB] Get:64 http://mirror.bm.debian.org/debian/ jessie/main liburi-perl all 1.64-1 [95.5 kB] Get:65 http://mirror.bm.debian.org/debian/ jessie/main libssl1.0.0 amd64 1.0.1t-1+deb8u7 [1046 kB] Get:66 http://mirror.bm.debian.org/debian/ jessie/main libossp-uuid16 amd64 1.6.2-1.5+b1 [38.0 kB] Get:67 http://mirror.bm.debian.org/debian/ jessie/main libexpat1 amd64 2.1.0-6+deb8u4 [80.2 kB] Get:68 http://mirror.bm.debian.org/debian/ jessie/main libnet-http-perl all 6.07-1 [24.8 kB] Get:69 http://mirror.bm.debian.org/debian/ jessie/main liblwp-protocol-https-perl all 6.06-2 [9582 B] Get:70 http://mirror.bm.debian.org/debian/ jessie/main libhttp-message-perl all 6.06-1 [80.1 kB] Get:71 http://mirror.bm.debian.org/debian/ jessie/main libhttp-cookies-perl all 6.01-1 [17.4 kB] Get:72 http://mirror.bm.debian.org/debian/ jessie/main libwww-perl all 6.08-1 [194 kB] Get:73 http://mirror.bm.debian.org/debian/ jessie/main libsoap-lite-perl all 1.11-1 [272 kB] Get:74 http://mirror.bm.debian.org/debian/ jessie/main libio-sessiondata-perl all 1.03-1 [5782 B] Get:75 http://mirror.bm.debian.org/debian/ jessie/main libclass-inspector-perl all 1.28-1 [20.8 kB] Get:76 http://mirror.bm.debian.org/debian/ jessie/main libio-socket-ssl-perl all 2.002-2+deb8u3 [172 kB] Get:77 http://mirror.bm.debian.org/debian/ jessie/main libconvert-binhex-perl all 1.123-2 [30.2 kB] Get:78 http://mirror.bm.debian.org/debian/ jessie/main libnet-smtp-ssl-perl all 1.01-3 [5996 B] Get:79 http://mirror.bm.debian.org/debian/ jessie/main libtimedate-perl all 2.3000-2 [42.2 kB] Get:80 http://mirror.bm.debian.org/debian/ jessie/main libmailtools-perl all 2.13-1 [96.6 kB] Get:81 http://mirror.bm.debian.org/debian/ jessie/main libmime-tools-perl all 5.505-1 [226 kB] Get:82 http://mirror.bm.debian.org/debian/ jessie/main libtask-weaken-perl all 1.04-1 [7990 B] Get:83 http://mirror.bm.debian.org/debian/ jessie/main openssl amd64 1.0.1t-1+deb8u7 [665 kB] Get:84 http://mirror.bm.debian.org/debian/ jessie/main ca-certificates all 20141019+deb8u3 [207 kB] Get:85 http://mirror.bm.debian.org/debian/ jessie/main libio-html-perl all 1.001-1 [17.6 kB] Get:86 http://mirror.bm.debian.org/debian/ jessie/main libhtml-tree-perl all 5.03-1 [210 kB] Get:87 http://mirror.bm.debian.org/debian/ jessie/main debconf all 1.5.56+deb8u1 [167 kB] Get:88 http://mirror.bm.debian.org/debian/ jessie/main libpam0g amd64 1.1.8-3.1+deb8u2+b1 [126 kB] Get:89 http://mirror.bm.debian.org/debian/ jessie/main libsemanage-common all 2.3-1 [24.6 kB] Get:90 http://mirror.bm.debian.org/debian/ jessie/main libsemanage1 amd64 2.3-1+b1 [90.2 kB] Get:91 http://mirror.bm.debian.org/debian/ jessie/main libsepol1 amd64 2.3-2 [127 kB] Get:92 http://mirror.bm.debian.org/debian/ jessie/main libustr-1.0-1 amd64 1.0.4-3+b2 [79.6 kB] Get:93 http://mirror.bm.debian.org/debian/ jessie/main libpam-modules-bin amd64 1.1.8-3.1+deb8u2+b1 [104 kB] Get:94 http://mirror.bm.debian.org/debian/ jessie/main libpam-modules amd64 1.1.8-3.1+deb8u2+b1 [307 kB] Get:95 http://mirror.bm.debian.org/debian/ jessie/main passwd amd64 1:4.2-3+deb8u4 [971 kB] Get:96 http://mirror.bm.debian.org/debian/ jessie/main libuuid1 amd64 2.25.2-6 [64.7 kB] Get:97 http://mirror.bm.debian.org/debian/ jessie/main libblkid1 amd64 2.25.2-6 [156 kB] Get:98 http://mirror.bm.debian.org/debian/ jessie/main tzdata all 2017c-0+deb8u1 [232 kB] Get:99 http://mirror.bm.debian.org/debian/ jessie/main util-linux amd64 2.25.2-6 [845 kB] Get:100 http://mirror.bm.debian.org/debian/ jessie/main libdevmapper1.02.1 amd64 2:1.02.90-2.2+deb8u1 [145 kB] Get:101 http://mirror.bm.debian.org/debian/ jessie/main dmsetup amd64 2:1.02.90-2.2+deb8u1 [69.1 kB] Get:102 http://mirror.bm.debian.org/debian/ jessie/main libcryptsetup4 amd64 2:1.6.6-5 [103 kB] Get:103 http://mirror.bm.debian.org/debian/ jessie/main libkmod2 amd64 18-3 [46.2 kB] Get:104 http://mirror.bm.debian.org/debian/ jessie/main libprocps3 amd64 2:3.3.9-9 [56.3 kB] Get:105 http://mirror.bm.debian.org/debian/ jessie/main libtinfo5 amd64 5.9+20140913-1+deb8u2 [282 kB] Get:106 http://mirror.bm.debian.org/debian/ jessie/main libncurses5 amd64 5.9+20140913-1+deb8u2 [96.6 kB] Get:107 http://mirror.bm.debian.org/debian/ jessie/main libncursesw5 amd64 5.9+20140913-1+deb8u2 [123 kB] Get:108 http://mirror.bm.debian.org/debian/ jessie/main procps amd64 2:3.3.9-9 [236 kB] Get:109 http://mirror.bm.debian.org/debian/ jessie/main libacl1 amd64 2.2.52-2 [27.9 kB] Get:110 http://mirror.bm.debian.org/debian/ jessie/main udev amd64 215-17+deb8u7 [876 kB] Get:111 http://mirror.bm.debian.org/debian/ jessie/main acl amd64 2.2.52-2 [58.4 kB] Get:112 http://mirror.bm.debian.org/debian/ jessie/main libcap2-bin amd64 1:2.24-8 [25.4 kB] Get:113 http://mirror.bm.debian.org/debian/ jessie/main systemd amd64 215-17+deb8u7 [2545 kB] Get:114 http://mirror.bm.debian.org/debian/ jessie/main systemd-sysv amd64 215-17+deb8u7 [36.7 kB] Get:115 http://mirror.bm.debian.org/debian/ jessie/main init amd64 1.22 [4674 B] Get:116 http://mirror.bm.debian.org/debian/ jessie/main login amd64 1:4.2-3+deb8u4 [722 kB] Get:117 http://mirror.bm.debian.org/debian/ jessie/main ncurses-bin amd64 5.9+20140913-1+deb8u2 [347 kB] Get:118 http://mirror.bm.debian.org/debian/ jessie/main sed amd64 4.2.2-4+deb8u1 [243 kB] Get:119 http://mirror.bm.debian.org/debian/ jessie/main tar amd64 1.27.1-2+deb8u1 [676 kB] Get:120 http://mirror.bm.debian.org/debian/ jessie/main sysvinit amd64 2.88dsf-59 [99.9 kB] Get:121 http://mirror.bm.debian.org/debian/ jessie/main liblzma5 amd64 5.1.1alpha+20120614-2+b3 [194 kB] Get:122 http://mirror.bm.debian.org/debian/ jessie/main libapt-pkg4.12 amd64 1.0.9.8.4 [792 kB] Get:123 http://mirror.bm.debian.org/debian/ jessie/main gpgv amd64 1.4.18-7+deb8u4 [209 kB] Get:124 http://mirror.bm.debian.org/debian/ jessie/main debian-archive-keyring all 2017.5~deb8u1 [56.7 kB] Get:125 http://mirror.bm.debian.org/debian/ jessie/main readline-common all 6.3-8 [57.7 kB] Get:126 http://mirror.bm.debian.org/debian/ jessie/main libreadline6 amd64 6.3-8+b3 [143 kB] Get:127 http://mirror.bm.debian.org/debian/ jessie/main libusb-0.1-4 amd64 2:0.1.12-25 [21.9 kB] Get:128 http://mirror.bm.debian.org/debian/ jessie/main gnupg amd64 1.4.18-7+deb8u4 [1149 kB] Get:129 http://mirror.bm.debian.org/debian/ jessie/main apt amd64 1.0.9.8.4 [1109 kB] Get:130 http://mirror.bm.debian.org/debian/ jessie/main libdebconfclient0 amd64 0.192 [46.2 kB] Get:131 http://mirror.bm.debian.org/debian/ jessie/main base-passwd amd64 3.5.37 [64.5 kB] Get:132 http://mirror.bm.debian.org/debian/ jessie/main ncurses-base all 5.9+20140913-1+deb8u2 [222 kB] Get:133 http://mirror.bm.debian.org/debian/ jessie/main libslang2 amd64 2.3.0-2 [491 kB] Get:134 http://mirror.bm.debian.org/debian/ jessie/main libcomerr2 amd64 1.42.12-2+b1 [60.7 kB] Get:135 http://mirror.bm.debian.org/debian/ jessie/main libss2 amd64 1.42.12-2+b1 [65.0 kB] Get:136 http://mirror.bm.debian.org/debian/ jessie/main libgmp10 amd64 2:6.0.0+dfsg-6 [253 kB] Get:137 http://mirror.bm.debian.org/debian/ jessie/main libnettle4 amd64 2.7.1-5+deb8u2 [176 kB] Get:138 http://mirror.bm.debian.org/debian/ jessie/main libhogweed2 amd64 2.7.1-5+deb8u2 [125 kB] Get:139 http://mirror.bm.debian.org/debian/ jessie/main libffi6 amd64 3.1-2+deb8u1 [20.2 kB] Get:140 http://mirror.bm.debian.org/debian/ jessie/main libp11-kit0 amd64 0.20.7-1 [81.2 kB] Get:141 http://mirror.bm.debian.org/debian/ jessie/main libtasn1-6 amd64 4.2-3+deb8u3 [49.2 kB] Get:142 http://mirror.bm.debian.org/debian/ jessie/main libgnutls-deb0-28 amd64 3.3.8-6+deb8u7 [696 kB] Get:143 http://mirror.bm.debian.org/debian/ jessie/main libgpm2 amd64 1.20.4-6.1+b2 [34.0 kB] Get:144 http://mirror.bm.debian.org/debian/ jessie/main libidn11 amd64 1.29-1+deb8u2 [136 kB] Get:145 http://mirror.bm.debian.org/debian/ jessie/main file amd64 1:5.22+15-2+deb8u3 [60.4 kB] Get:146 http://mirror.bm.debian.org/debian/ jessie/main libmagic1 amd64 1:5.22+15-2+deb8u3 [250 kB] Get:147 http://mirror.bm.debian.org/debian/ jessie/main libsqlite3-0 amd64 3.8.7.1-1+deb8u2 [438 kB] Get:148 http://mirror.bm.debian.org/debian/ jessie/main libpython2.7-minimal amd64 2.7.9-2+deb8u1 [378 kB] Get:149 http://mirror.bm.debian.org/debian/ jessie/main python2.7-minimal amd64 2.7.9-2+deb8u1 [1401 kB] Get:150 http://mirror.bm.debian.org/debian/ jessie/main python-minimal amd64 2.7.9-1 [40.3 kB] Get:151 http://mirror.bm.debian.org/debian/ jessie/main mime-support all 3.58 [36.0 kB] Get:152 http://mirror.bm.debian.org/debian/ jessie/main libpython2.7-stdlib amd64 2.7.9-2+deb8u1 [1847 kB] Get:153 http://mirror.bm.debian.org/debian/ jessie/main python2.7 amd64 2.7.9-2+deb8u1 [252 kB] Get:154 http://mirror.bm.debian.org/debian/ jessie/main libpython-stdlib amd64 2.7.9-1 [19.5 kB] Get:155 http://mirror.bm.debian.org/debian/ jessie/main python amd64 2.7.9-1 [151 kB] Get:156 http://mirror.bm.debian.org/debian/ jessie/main libbsd0 amd64 0.7.0-2 [67.9 kB] Get:157 http://mirror.bm.debian.org/debian/ jessie/main libcap-ng0 amd64 0.7.4-2 [13.2 kB] Get:158 http://mirror.bm.debian.org/debian/ jessie/main libdbus-1-3 amd64 1.8.22-0+deb8u1 [170 kB] Get:159 http://mirror.bm.debian.org/debian/ jessie/main libisc-export95 amd64 1:9.9.5.dfsg-9+deb8u14 [141 kB] Get:160 http://mirror.bm.debian.org/debian/ jessie/main libdns-export100 amd64 1:9.9.5.dfsg-9+deb8u14 [456 kB] Get:161 http://mirror.bm.debian.org/debian/ jessie/main libgomp1 amd64 4.9.2-10 [37.8 kB] Get:162 http://mirror.bm.debian.org/debian/ jessie/main libisccfg-export90 amd64 1:9.9.5.dfsg-9+deb8u14 [41.4 kB] Get:163 http://mirror.bm.debian.org/debian/ jessie/main libirs-export91 amd64 1:9.9.5.dfsg-9+deb8u14 [39.1 kB] Get:164 http://mirror.bm.debian.org/debian/ jessie/main libncbi6 amd64 6.1.20120620-8 [3769 kB] Get:165 http://mirror.bm.debian.org/debian/ jessie/main ncbi-data all 6.1.20120620-8 [3320 kB] Get:166 http://mirror.bm.debian.org/debian/ jessie/main libpam-runtime all 1.1.8-3.1+deb8u2 [212 kB] Get:167 http://mirror.bm.debian.org/debian/ jessie/main dbus amd64 1.8.22-0+deb8u1 [292 kB] Get:168 http://mirror.bm.debian.org/debian/ jessie/main libpam-systemd amd64 215-17+deb8u7 [126 kB] Get:169 http://mirror.bm.debian.org/debian/ jessie/main libyaml-0-2 amd64 0.1.6-3 [50.4 kB] Get:170 http://mirror.bm.debian.org/debian/ jessie/main multiarch-support amd64 2.19-18+deb8u10 [181 kB] Get:171 http://mirror.bm.debian.org/debian/ jessie/main isc-dhcp-common amd64 4.3.1-6+deb8u2 [211 kB] Get:172 http://mirror.bm.debian.org/debian/ jessie/main isc-dhcp-client amd64 4.3.1-6+deb8u2 [250 kB] Get:173 http://mirror.bm.debian.org/debian/ jessie/main libxtables10 amd64 1.4.21-2+b1 [67.6 kB] Get:174 http://mirror.bm.debian.org/debian/ jessie/main debconf-i18n all 1.5.56+deb8u1 [206 kB] Get:175 http://mirror.bm.debian.org/debian/ jessie/main libclass-isa-perl all 0.36-5 [10.1 kB] Get:176 http://mirror.bm.debian.org/debian/ jessie/main libswitch-perl all 2.17-2 [20.5 kB] Get:177 http://mirror.bm.debian.org/debian/ jessie/main ucf all 3.0030 [69.7 kB] Get:178 http://mirror.bm.debian.org/debian/ jessie/main xz-utils amd64 5.1.1alpha+20120614-2+b3 [221 kB] Get:179 http://mirror.bm.debian.org/debian/ jessie/main amap-align amd64 2.2-4 [132 kB] Get:180 http://mirror.bm.debian.org/debian/ jessie/main blast2 amd64 1:2.2.26.20120620-8 [559 kB] Get:181 http://mirror.bm.debian.org/debian/ jessie/main libargtable2-0 amd64 12-1.1 [17.2 kB] Get:182 http://mirror.bm.debian.org/debian/ jessie/main clustalo amd64 1.2.1-1 [251 kB] Get:183 http://mirror.bm.debian.org/debian/ jessie/main clustalw amd64 2.1+lgpl-4 [276 kB] Get:184 http://mirror.bm.debian.org/debian/ jessie/main dialign-tx-data all 1.0.2-7 [880 kB] Get:185 http://mirror.bm.debian.org/debian/ jessie/main dialign-tx amd64 1.0.2-7 [83.0 kB] Get:186 http://mirror.bm.debian.org/debian/ jessie/main hmmer amd64 3.1b1-3 [1026 kB] Get:187 http://mirror.bm.debian.org/debian/ jessie/main javascript-common all 11 [6120 B] Get:188 http://mirror.bm.debian.org/debian/ jessie/main kalign amd64 1:2.03+20110620-2 [94.8 kB] Get:189 http://mirror.bm.debian.org/debian/ jessie/main libalgorithm-c3-perl all 0.09-1 [11.9 kB] Get:190 http://mirror.bm.debian.org/debian/ jessie/main libarchive-extract-perl all 0.72-1 [24.8 kB] Get:191 http://mirror.bm.debian.org/debian/ jessie/main libauthen-sasl-perl all 2.1600-1 [50.8 kB] Get:192 http://mirror.bm.debian.org/debian/ jessie/main libcgi-pm-perl all 4.09-1 [213 kB] Get:193 http://mirror.bm.debian.org/debian/ jessie/main libcgi-fast-perl all 1:2.04-1 [10.9 kB] Get:194 http://mirror.bm.debian.org/debian/ jessie/main libclass-c3-perl all 0.26-1 [22.9 kB] Get:195 http://mirror.bm.debian.org/debian/ jessie/main libclass-c3-xs-perl amd64 0.13-2+b1 [15.2 kB] Get:196 http://mirror.bm.debian.org/debian/ jessie/main libcpan-meta-perl all 2.142690-1 [125 kB] Get:197 http://mirror.bm.debian.org/debian/ jessie/main libparams-util-perl amd64 1.07-2+b1 [23.5 kB] Get:198 http://mirror.bm.debian.org/debian/ jessie/main libsub-install-perl all 0.928-1 [11.4 kB] Get:199 http://mirror.bm.debian.org/debian/ jessie/main libdata-optlist-perl all 0.109-1 [10.6 kB] Get:200 http://mirror.bm.debian.org/debian/ jessie/main libmro-compat-perl all 0.12-1 [13.2 kB] Get:201 http://mirror.bm.debian.org/debian/ jessie/main libsub-exporter-perl all 0.986-1 [49.9 kB] Get:202 http://mirror.bm.debian.org/debian/ jessie/main libdata-section-perl all 0.200006-1 [13.4 kB] Get:203 http://mirror.bm.debian.org/debian/ jessie/main libhtml-format-perl all 2.11-1 [43.1 kB] Get:204 http://mirror.bm.debian.org/debian/ jessie/main libjs-jquery all 1.7.2+dfsg-3.2 [97.5 kB] Get:205 http://mirror.bm.debian.org/debian/ jessie/main liblog-message-perl all 0.8-1 [26.0 kB] Get:206 http://mirror.bm.debian.org/debian/ jessie/main liblog-message-simple-perl all 0.10-2 [8126 B] Get:207 http://mirror.bm.debian.org/debian/ jessie/main libmodule-build-perl all 0.421000-2+deb8u1 [265 kB] Get:208 http://mirror.bm.debian.org/debian/ jessie/main libmodule-pluggable-perl all 5.1-1 [25.0 kB] Get:209 http://mirror.bm.debian.org/debian/ jessie/main libmodule-signature-perl all 0.73-1+deb8u2 [30.4 kB] Get:210 http://mirror.bm.debian.org/debian/ jessie/main libpackage-constants-perl all 0.04-1 [5820 B] Get:211 http://mirror.bm.debian.org/debian/ jessie/main libpam-cap amd64 1:2.24-8 [12.5 kB] Get:212 http://mirror.bm.debian.org/debian/ jessie/main libpod-latex-perl all 0.61-1 [34.7 kB] Get:213 http://mirror.bm.debian.org/debian/ jessie/main libregexp-common-perl all 2013031301-1 [173 kB] Get:214 http://mirror.bm.debian.org/debian/ jessie/main libpod-readme-perl all 0.11-1 [15.3 kB] Get:215 http://mirror.bm.debian.org/debian/ jessie/main libtext-template-perl all 1.46-1 [53.1 kB] Get:216 http://mirror.bm.debian.org/debian/ jessie/main libsoftware-license-perl all 0.103010-3 [119 kB] Get:217 http://mirror.bm.debian.org/debian/ jessie/main libterm-ui-perl all 0.42-1 [19.1 kB] Get:218 http://mirror.bm.debian.org/debian/ jessie/main libtext-soundex-perl amd64 3.4-1+b2 [13.7 kB] Get:219 http://mirror.bm.debian.org/debian/ jessie/main libxml-namespacesupport-perl all 1.11-1 [14.8 kB] Get:220 http://mirror.bm.debian.org/debian/ jessie/main libxmlrpc-lite-perl all 0.717-1 [26.1 kB] Get:221 http://mirror.bm.debian.org/debian/ jessie/main mafft amd64 7.205-1 [775 kB] Get:222 http://mirror.bm.debian.org/debian/ jessie/main mustang amd64 3.2.2-1 [112 kB] Get:223 http://mirror.bm.debian.org/debian/ jessie/main ncbi-blast+ amd64 2.2.29-3 [7965 kB] Get:224 http://mirror.bm.debian.org/debian/ jessie/main poa amd64 2.0+20060928-3 [50.8 kB] Get:225 http://mirror.bm.debian.org/debian/ jessie/main prank amd64 0.0.140110-1 [327 kB] Get:226 http://mirror.bm.debian.org/debian/ jessie/main proda amd64 1.0-8 [58.3 kB] Get:227 http://mirror.bm.debian.org/debian/ jessie/main psmisc amd64 22.21-2 [119 kB] Get:228 http://mirror.bm.debian.org/debian/ jessie/main rename all 0.20-3 [12.4 kB] Get:229 http://mirror.bm.debian.org/debian/ jessie/main rubygems-integration all 1.8 [4514 B] Get:230 http://mirror.bm.debian.org/debian/ jessie/main libruby2.1 amd64 2.1.5-2+deb8u3 [3290 kB] Get:231 http://mirror.bm.debian.org/debian/ jessie/main ruby2.1 amd64 2.1.5-2+deb8u3 [276 kB] Get:232 http://mirror.bm.debian.org/debian/ jessie/main ruby all 1:2.1.5+deb8u2 [9688 B] Get:233 http://mirror.bm.debian.org/debian/ jessie/main ruby-bio all 1.4.3.0001-2 [721 kB] Get:234 http://mirror.bm.debian.org/debian/ jessie/main sim4 amd64 0.0.20121010-1 [49.8 kB] Get:235 http://mirror.bm.debian.org/debian/ jessie/main t-coffee amd64 11.00.8cbe486-1 [921 kB] Get:236 http://mirror.bm.debian.org/debian/ jessie/main tm-align amd64 20140601+dfsg-1 [49.7 kB] Get:237 http://mirror.bm.debian.org/debian/ jessie/main lynx-cur amd64 2.8.9dev1-2+deb8u1 [1623 kB] Get:238 http://mirror.bm.debian.org/debian/ jessie/main lynx all 2.8.9dev1-2+deb8u1 [232 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 83.3 MB in 4s (16.8 MB/s) (Reading database ... 11592 files and directories currently installed.) Preparing to replace libc6:amd64 2.13-38+deb7u10 (using .../libc6_2.19-18+deb8u10_amd64.deb) ... Checking for services that may need to be restarted... Checking init scripts... Unpacking replacement libc6:amd64 ... Setting up libc6:amd64 (2.19-18+deb8u10) ... Checking for services that may need to be restarted... Checking init scripts... Nothing to restart. (Reading database ... 11595 files and directories currently installed.) Preparing to replace libc-bin 2.13-38+deb7u10 (using .../libc-bin_2.19-18+deb8u10_amd64.deb) ... Unpacking replacement libc-bin ... Setting up libc-bin (2.19-18+deb8u10) ... Installing new version of config file /etc/bindresvport.blacklist ... Installing new version of config file /etc/gai.conf ... dpkg: gcc-4.7-base:amd64: dependency problems, but removing anyway as you requested: libstdc++6:amd64 depends on gcc-4.7-base (= 4.7.2-5). libgfortran3:amd64 depends on gcc-4.7-base (= 4.7.2-5). libgcc1:amd64 depends on gcc-4.7-base (= 4.7.2-5). libquadmath0:amd64 depends on gcc-4.7-base (= 4.7.2-5). (Reading database ... 11585 files and directories currently installed.) Removing gcc-4.7-base:amd64 ... Selecting previously unselected package gcc-4.9-base:amd64. (Reading database ... 11576 files and directories currently installed.) Unpacking gcc-4.9-base:amd64 (from .../gcc-4.9-base_4.9.2-10_amd64.deb) ... Setting up gcc-4.9-base:amd64 (4.9.2-10) ... (Reading database ... 11585 files and directories currently installed.) Preparing to replace libstdc++6:amd64 4.7.2-5 (using .../libstdc++6_4.9.2-10_amd64.deb) ... Unpacking replacement libstdc++6:amd64 ... Setting up libstdc++6:amd64 (4.9.2-10) ... 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Installing new version of config file /etc/issue.net ... Updating /etc/profile to current default. Updating /etc/nsswitch.conf to current default. (Reading database ... 11599 files and directories currently installed.) Preparing to replace sensible-utils 0.0.7 (using .../sensible-utils_0.0.9_all.deb) ... Unpacking replacement sensible-utils ... Processing triggers for mime-support ... Setting up sensible-utils (0.0.9) ... (Reading database ... 11601 files and directories currently installed.) Preparing to replace debianutils 4.3.2 (using .../debianutils_4.4+b1_amd64.deb) ... Unpacking replacement debianutils ... Setting up debianutils (4.4+b1) ... (Reading database ... 11622 files and directories currently installed.) Preparing to replace bash 4.2+dfsg-0.1+deb7u3 (using .../bash_4.3-11+deb8u1_amd64.deb) ... Unpacking replacement bash ... Setting up bash (4.3-11+deb8u1) ... 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 ... 11630 files and directories currently installed.) Preparing to replace libgpg-error0:amd64 1.10-3.1 (using .../libgpg-error0_1.17-3_amd64.deb) ... Unpacking replacement libgpg-error0:amd64 ... Setting up libgpg-error0:amd64 (1.17-3) ... Processing triggers for libc-bin ... Selecting previously unselected package libgcrypt20:amd64. (Reading database ... 11635 files and directories currently installed.) Unpacking libgcrypt20:amd64 (from .../libgcrypt20_1.6.3-2+deb8u4_amd64.deb) ... Setting up libgcrypt20:amd64 (1.6.3-2+deb8u4) ... Processing triggers for libc-bin ... Selecting previously unselected package libsystemd0:amd64. (Reading database ... 11645 files and directories currently installed.) 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Changing shell of daemon from /bin/sh to /usr/sbin/nologin Changing shell of bin from /bin/sh to /usr/sbin/nologin Changing shell of sys from /bin/sh to /usr/sbin/nologin Changing shell of games from /bin/sh to /usr/sbin/nologin Changing shell of man from /bin/sh to /usr/sbin/nologin Changing shell of lp from /bin/sh to /usr/sbin/nologin Changing shell of mail from /bin/sh to /usr/sbin/nologin Changing shell of news from /bin/sh to /usr/sbin/nologin Changing shell of uucp from /bin/sh to /usr/sbin/nologin Changing shell of proxy from /bin/sh to /usr/sbin/nologin Changing shell of www-data from /bin/sh to /usr/sbin/nologin Changing shell of backup from /bin/sh to /usr/sbin/nologin Changing shell of list from /bin/sh to /usr/sbin/nologin Changing shell of irc from /bin/sh to /usr/sbin/nologin Changing shell of gnats from /bin/sh to /usr/sbin/nologin Changing shell of nobody from /bin/sh to /usr/sbin/nologin 16 changes have been made, rewriting files Writing passwd-file to /etc/passwd Writing shadow-file to /etc/shadow Writing group-file to /etc/group (Reading database ... 12219 files and directories currently installed.) 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Preparing to unpack .../tm-align_20140601+dfsg-1_amd64.deb ... Unpacking tm-align (20140601+dfsg-1) over (20120507-1) ... Preparing to unpack .../lynx-cur_2.8.9dev1-2+deb8u1_amd64.deb ... Unpacking lynx-cur (2.8.9dev1-2+deb8u1) over (2.8.8dev.12-2) ... Preparing to unpack .../lynx_2.8.9dev1-2+deb8u1_all.deb ... Unpacking lynx (2.8.9dev1-2+deb8u1) over (2.8.8dev.12-2) ... Setting up libquadmath0:amd64 (4.9.2-10) ... Setting up libgfortran3:amd64 (4.9.2-10) ... Setting up iproute2 (3.16.0-2) ... Installing new version of config file /etc/iproute2/ematch_map ... Setting up iproute (1:3.16.0-2) ... Setting up netbase (5.3) ... Installing new version of config file /etc/protocols ... Installing new version of config file /etc/services ... Setting up ifupdown (0.7.53.1) ... Installing new version of config file /etc/init.d/networking ... Installing new version of config file /etc/init/network-interface-container.conf ... Installing new version of config file /etc/init/network-interface-security.conf ... Installing new version of config file /etc/init/network-interface.conf ... Installing new version of config file /etc/init/networking.conf ... Setting up perl-modules (5.20.2-3+deb8u9) ... Setting up libgdbm3:amd64 (1.8.3-13.1) ... Setting up perl (5.20.2-3+deb8u9) ... Setting up libsocket-perl (2.016-1) ... Setting up libio-socket-ip-perl (0.32-1) ... Setting up libtext-charwidth-perl (0.04-7+b3) ... Setting up liburi-perl (1.64-1) ... Setting up libhtml-parser-perl (3.71-1+b3) ... Setting up liblocale-gettext-perl (1.05-8+b1) ... Setting up libssl1.0.0:amd64 (1.0.1t-1+deb8u7) ... Checking for services that may need to be restarted...done. Checking for services that may need to be restarted...done. Setting up libnet-ssleay-perl (1.65-1+deb8u1) ... Setting up libtext-iconv-perl (1.7-5+b2) ... Setting up libcrypt-ssleay-perl (0.58-1+b2) ... Setting up libossp-uuid16:amd64 (1.6.2-1.5+b1) ... Setting up libossp-uuid-perl (1.6.2-1.5+b1) ... Setting up libfcgi-perl (0.77-1+deb8u1) ... Setting up libexpat1:amd64 (2.1.0-6+deb8u4) ... Setting up openssl (1.0.1t-1+deb8u7) ... Setting up ca-certificates (20141019+deb8u3) ... Updating certificates in /etc/ssl/certs... 39 added, 36 removed; done. Setting up libhtml-tree-perl (5.03-1) ... Setting up libio-html-perl (1.001-1) ... Setting up libhttp-message-perl (6.06-1) ... Setting up libhttp-cookies-perl (6.01-1) ... Setting up libio-socket-ssl-perl (2.002-2+deb8u3) ... Setting up libnet-http-perl (6.07-1) ... Setting up libclass-inspector-perl (1.28-1) ... Setting up libio-sessiondata-perl (1.03-1) ... Setting up libconvert-binhex-perl (1.123-2) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libnet-smtp-ssl-perl (1.01-3) ... Setting up libmailtools-perl (2.13-1) ... Setting up libmime-tools-perl (5.505-1) ... Setting up libtask-weaken-perl (1.04-1) ... Setting up libgmp10:amd64 (2:6.0.0+dfsg-6) ... Setting up libnettle4:amd64 (2.7.1-5+deb8u2) ... Setting up libhogweed2:amd64 (2.7.1-5+deb8u2) ... Setting up libffi6:amd64 (3.1-2+deb8u1) ... Setting up libp11-kit0:amd64 (0.20.7-1) ... Setting up libtasn1-6:amd64 (4.2-3+deb8u3) ... Setting up libgnutls-deb0-28:amd64 (3.3.8-6+deb8u7) ... Setting up libgpm2:amd64 (1.20.4-6.1+b2) ... Setting up libidn11:amd64 (1.29-1+deb8u2) ... Setting up libmagic1:amd64 (1:5.22+15-2+deb8u3) ... Setting up file (1:5.22+15-2+deb8u3) ... Setting up libsqlite3-0:amd64 (3.8.7.1-1+deb8u2) ... Setting up mime-support (3.58) ... Installing new version of config file /etc/mime.types ... Setting up libpython2.7-stdlib:amd64 (2.7.9-2+deb8u1) ... Setting up python2.7 (2.7.9-2+deb8u1) ... Setting up libpython-stdlib:amd64 (2.7.9-1) ... Setting up python (2.7.9-1) ... Setting up libbsd0:amd64 (0.7.0-2) ... Setting up libcap-ng0:amd64 (0.7.4-2) ... Setting up libdbus-1-3:amd64 (1.8.22-0+deb8u1) ... Setting up libisc-export95 (1:9.9.5.dfsg-9+deb8u14) ... Setting up libdns-export100 (1:9.9.5.dfsg-9+deb8u14) ... Setting up libgomp1:amd64 (4.9.2-10) ... Setting up libisccfg-export90 (1:9.9.5.dfsg-9+deb8u14) ... Setting up libirs-export91 (1:9.9.5.dfsg-9+deb8u14) ... Setting up ncbi-data (6.1.20120620-8) ... Setting up libncbi6:amd64 (6.1.20120620-8) ... Setting up dbus (1.8.22-0+deb8u1) ... invoke-rc.d: policy-rc.d denied execution of start. Setting up libpam-systemd:amd64 (215-17+deb8u7) ... Setting up libyaml-0-2:amd64 (0.1.6-3) ... Setting up isc-dhcp-common (4.3.1-6+deb8u2) ... Setting up isc-dhcp-client (4.3.1-6+deb8u2) ... Setting up libxtables10 (1.4.21-2+b1) ... Setting up debconf-i18n (1.5.56+deb8u1) ... Setting up libclass-isa-perl (0.36-5) ... Setting up libswitch-perl (2.17-2) ... Setting up ucf (3.0030) ... Setting up xz-utils (5.1.1alpha+20120614-2+b3) ... Setting up amap-align (2.2-4) ... Setting up blast2 (1:2.2.26.20120620-8) ... Setting up libargtable2-0 (12-1.1) ... Setting up clustalo (1.2.1-1) ... Setting up clustalw (2.1+lgpl-4) ... Setting up dialign-tx-data (1.0.2-7) ... Setting up dialign-tx (1.0.2-7) ... Setting up hmmer (3.1b1-3) ... Setting up javascript-common (11) ... Setting up kalign (1:2.03+20110620-2) ... Setting up libalgorithm-c3-perl (0.09-1) ... Setting up libarchive-extract-perl (0.72-1) ... Setting up libauthen-sasl-perl (2.1600-1) ... Setting up libcgi-pm-perl (4.09-1) ... Setting up libcgi-fast-perl (1:2.04-1) ... Setting up libclass-c3-perl (0.26-1) ... Setting up libclass-c3-xs-perl (0.13-2+b1) ... Setting up libcpan-meta-perl (2.142690-1) ... Setting up libparams-util-perl (1.07-2+b1) ... Setting up libsub-install-perl (0.928-1) ... Setting up libdata-optlist-perl (0.109-1) ... Setting up libmro-compat-perl (0.12-1) ... Setting up libsub-exporter-perl (0.986-1) ... Setting up libdata-section-perl (0.200006-1) ... Setting up libhtml-format-perl (2.11-1) ... Setting up libjs-jquery (1.7.2+dfsg-3.2) ... Setting up liblog-message-perl (0.8-1) ... Setting up liblog-message-simple-perl (0.10-2) ... Setting up libmodule-build-perl (0.421000-2+deb8u1) ... Setting up libmodule-pluggable-perl (5.1-1) ... Setting up libmodule-signature-perl (0.73-1+deb8u2) ... Setting up libpackage-constants-perl (0.04-1) ... Setting up libpam-cap:amd64 (1:2.24-8) ... Setting up libpod-latex-perl (0.61-1) ... Setting up libregexp-common-perl (2013031301-1) ... Setting up libpod-readme-perl (0.11-1) ... Setting up libtext-template-perl (1.46-1) ... Setting up libsoftware-license-perl (0.103010-3) ... Setting up libterm-ui-perl (0.42-1) ... Setting up libtext-soundex-perl (3.4-1+b2) ... Setting up libxml-namespacesupport-perl (1.11-1) ... Setting up mafft (7.205-1) ... Setting up mustang (3.2.2-1) ... Setting up ncbi-blast+ (2.2.29-3) ... Setting up poa (2.0+20060928-3) ... Setting up prank (0.0.140110-1) ... Setting up proda (1.0-8) ... Setting up psmisc (22.21-2) ... Setting up rename (0.20-3) ... update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode Setting up rubygems-integration (1.8) ... Setting up libruby2.1:amd64 (2.1.5-2+deb8u3) ... Setting up ruby2.1 (2.1.5-2+deb8u3) ... Setting up ruby (1:2.1.5+deb8u2) ... Setting up ruby-bio (1.4.3.0001-2) ... Setting up sim4 (0.0.20121010-1) ... Setting up t-coffee (11.00.8cbe486-1) ... Setting up tm-align (20140601+dfsg-1) ... Setting up lynx-cur (2.8.9dev1-2+deb8u1) ... Installing new version of config file /etc/lynx-cur/lynx.cfg ... Setting up lynx (2.8.9dev1-2+deb8u1) ... Setting up libwww-perl (6.08-1) ... Setting up liblwp-protocol-https-perl (6.06-2) ... Setting up libxml-parser-perl (2.41-3) ... Setting up libsoap-lite-perl (1.11-1) ... Setting up libxmlrpc-lite-perl (0.717-1) ... Processing triggers for libc-bin (2.19-18+deb8u10) ... Processing triggers for systemd (215-17+deb8u7) ... Processing triggers for ca-certificates (20141019+deb8u3) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d....done. 1m40.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-yf', 'dist-upgrade'] 1m40.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m42.8s DUMP: 25132ed99e8549297ce3c8ebf4f536e8 - 1m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m42.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'show', '--no-all-versions', 'ruby-bio'] 1m42.8s DUMP: Package: ruby-bio Version: 1.4.3.0001-2 Installed-Size: 3195 Maintainer: Debian Ruby Extras Maintainers Architecture: all Depends: ruby | ruby-interpreter Recommends: blast2, hmmer, mafft, muscle, probcons, sim4, t-coffee Suggests: clustalw, emboss Description-en: Ruby tools for computational molecular biology BioRuby project aims to implement an integrated environment for Bioinformatics with Ruby language. Design philosophy of the BioRuby library is KISS (keep it simple, stupid) to maximize the usability and the efficiency for biologists as a daily tool. The project was started in Japan and supported by University of Tokyo (Human Genome Center), Kyoto University (Bioinformatics Center) and the Open Bio Foundation. Description-md5: 9551e5ebe8c49f9d9485b7f15547f082 Homepage: http://www.bioruby.org/ Ruby-Versions: ruby1.9.1 ruby2.0 Section: ruby Priority: optional Filename: pool/main/r/ruby-bio/ruby-bio_1.4.3.0001-2_all.deb Size: 721318 MD5sum: 4717d63891aad4e33281320efd7c3501 SHA1: 66b3547f0f4f815c648a79fa385044b20188623e SHA256: 6465dc6a324bec85b1c88c8b26a6be1c1f193b93c0c268aafa611cebbbee675f 1m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'show', '--no-all-versions', 'ruby-bio'] 1m42.8s INFO: apt-cache knows about the following packages: ruby-bio 1m42.8s INFO: Running scripts pre_install 1m42.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_database-server'] 1m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_database-server'] 1m42.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_exceptions'] 1m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_exceptions'] 1m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_extras'] 1m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_extras'] 1m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture'] 1m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture'] 1m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy'] 1m43.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror.bm.debian.org/debian/ jessie/main Translation-en 500 http://mirror.bm.debian.org/debian/ jessie/main amd64 Packages release v=8.10,o=Debian,a=oldstable,n=jessie,l=Debian,c=main origin mirror.bm.debian.org Pinned packages: 1m43.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy'] 1m43.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy', 'ruby-bio'] 1m43.1s DUMP: ruby-bio: Installed: 1.4.3.0001-2 Candidate: 1.4.3.0001-2 Version table: *** 1.4.3.0001-2 0 500 http://mirror.bm.debian.org/debian/ jessie/main amd64 Packages 100 /var/lib/dpkg/status 1m43.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy', 'ruby-bio'] 1m43.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-y', 'install', 'ruby-bio'] 1m43.7s DUMP: Reading package lists... Building dependency tree... Reading state information... ruby-bio is already the newest version. The following packages were automatically installed and are no longer required: libclass-isa-perl libgcrypt11 libgnutls26 libswitch-perl libtasn1-3 Use 'apt-get autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-y', 'install', 'ruby-bio'] 1m43.7s INFO: Running scripts post_install 1m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_install_exceptions'] 1m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_install_exceptions'] 1m43.7s INFO: Running scripts post_distupgrade 1m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_exceptions'] 1m43.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_exceptions'] 1m43.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_experimental'] 1m43.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_experimental'] 1m43.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m43.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m43.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_hack_debsums'] 1m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_hack_debsums'] 1m43.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m43.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_zz_backports'] 1m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_distupgrade_zz_backports'] 1m43.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 1m46.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 1m46.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 1m48.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 1m48.8s INFO: Running scripts pre_install 1m48.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_database-server'] 1m48.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_database-server'] 1m48.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_exceptions'] 1m48.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_exceptions'] 1m48.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_extras'] 1m48.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_extras'] 1m48.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture'] 1m48.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture'] 1m48.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m48.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m48.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy'] 1m49.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror.bm.debian.org/debian/ jessie/main Translation-en 500 http://mirror.bm.debian.org/debian/ jessie/main amd64 Packages release v=8.10,o=Debian,a=oldstable,n=jessie,l=Debian,c=main origin mirror.bm.debian.org Pinned packages: 1m49.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy'] 1m49.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy', 'ruby-bio'] 1m49.0s DUMP: ruby-bio: Installed: 1.4.3.0001-2 Candidate: 1.4.3.0001-2 Version table: *** 1.4.3.0001-2 0 500 http://mirror.bm.debian.org/debian/ jessie/main amd64 Packages 100 /var/lib/dpkg/status 1m49.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-cache', 'policy', 'ruby-bio'] 1m49.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-y', 'install', 'ruby-bio=1.4.3.0001-2'] 1m49.7s DUMP: Reading package lists... Building dependency tree... Reading state information... ruby-bio is already the newest version. The following packages were automatically installed and are no longer required: libclass-isa-perl libgcrypt11 libgnutls26 libswitch-perl libtasn1-3 Use 'apt-get autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m49.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', '-y', 'install', 'ruby-bio=1.4.3.0001-2'] 1m49.7s INFO: Running scripts post_install 1m49.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_install_exceptions'] 1m49.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_install_exceptions'] 1m49.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 1m52.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 1m52.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m52.2s DUMP: install ok installed acl acl 2.2.52-2 install ok installed adduser adduser 3.113+nmu3 install ok installed amap-align amap-align 2.2-4 install ok installed apt apt 1.0.9.8.4 install ok installed base-files base-files 8+deb8u10 install ok installed base-passwd base-passwd 3.5.37 install ok installed bash bash 4.3-11+deb8u1 install ok installed blast2 blast2 1:2.2.26.20120620-8 install ok installed bsdutils bsdutils 1:2.25.2-6 install ok installed ca-certificates ca-certificates 20141019+deb8u3 install ok installed clustalo clustalo 1.2.1-1 install ok installed clustalw clustalw 2.1+lgpl-4 install ok installed coreutils coreutils 8.23-4 install ok installed dash dash 0.5.7-4+b1 install ok installed dbus dbus 1.8.22-0+deb8u1 install ok installed debconf debconf 1.5.56+deb8u1 install ok installed debconf-i18n debconf-i18n 1.5.56+deb8u1 install ok installed debian-archive-keyring debian-archive-keyring 2017.5~deb8u1 install ok installed debianutils debianutils 4.4+b1 install ok installed dialign-tx dialign-tx 1.0.2-7 install ok installed dialign-tx-data dialign-tx-data 1.0.2-7 install ok installed diffutils diffutils 1:3.3-1+b1 install ok installed dmsetup dmsetup 2:1.02.90-2.2+deb8u1 install ok installed dpkg dpkg 1.17.27 install ok installed e2fslibs:amd64 e2fslibs 1.42.12-2+b1 install ok installed e2fsprogs e2fsprogs 1.42.12-2+b1 install ok installed file file 1:5.22+15-2+deb8u3 install ok installed findutils findutils 4.4.2-9+b1 install ok installed gcc-4.9-base:amd64 gcc-4.9-base 4.9.2-10 install ok installed gnupg gnupg 1.4.18-7+deb8u4 install ok installed gpgv gpgv 1.4.18-7+deb8u4 install ok installed grep grep 2.20-4.1 install ok installed gzip gzip 1.6-4 install ok installed hmmer hmmer 3.1b1-3 install ok installed hostname hostname 3.15 install ok installed ifupdown ifupdown 0.7.53.1 install ok installed init init 1.22 install ok installed initscripts initscripts 2.88dsf-59 install ok installed insserv insserv 1.14.0-5 install ok installed iproute iproute 1:3.16.0-2 install ok installed iproute2 iproute2 3.16.0-2 install ok installed isc-dhcp-client isc-dhcp-client 4.3.1-6+deb8u2 install ok installed isc-dhcp-common isc-dhcp-common 4.3.1-6+deb8u2 install ok installed javascript-common javascript-common 11 install ok installed kalign kalign 1:2.03+20110620-2 install ok installed libacl1:amd64 libacl1 2.2.52-2 install ok installed libalgorithm-c3-perl libalgorithm-c3-perl 0.09-1 install ok installed libapt-pkg4.12:amd64 libapt-pkg4.12 1.0.9.8.4 install ok installed libarchive-extract-perl libarchive-extract-perl 0.72-1 install ok installed libargtable2-0 libargtable2-0 12-1.1 install ok installed libatm1:amd64 libatm1 1:2.5.1-1.5 install ok installed libattr1:amd64 libattr1 1:2.4.47-2 install ok installed libaudit-common libaudit-common 1:2.4-1 install ok installed libaudit1:amd64 libaudit1 1:2.4-1+b1 install ok installed libauthen-sasl-perl libauthen-sasl-perl 2.1600-1 install ok installed libblkid1:amd64 libblkid1 2.25.2-6 install ok installed libbsd0:amd64 libbsd0 0.7.0-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-7+b3 install ok installed libc-bin libc-bin 2.19-18+deb8u10 install ok installed libc6:amd64 libc6 2.19-18+deb8u10 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.4-2 install ok installed libcap2:amd64 libcap2 1:2.24-8 install ok installed libcap2-bin libcap2-bin 1:2.24-8 install ok installed libcgi-fast-perl libcgi-fast-perl 1:2.04-1 install ok installed libcgi-pm-perl libcgi-pm-perl 4.09-1 install ok installed libclass-c3-perl libclass-c3-perl 0.26-1 install ok installed libclass-c3-xs-perl libclass-c3-xs-perl 0.13-2+b1 install ok installed libclass-inspector-perl libclass-inspector-perl 1.28-1 install ok installed libclass-isa-perl libclass-isa-perl 0.36-5 install ok installed libcomerr2:amd64 libcomerr2 1.42.12-2+b1 install ok installed libconvert-binhex-perl libconvert-binhex-perl 1.123-2 install ok installed libcpan-meta-perl libcpan-meta-perl 2.142690-1 install ok installed libcrypt-ssleay-perl libcrypt-ssleay-perl 0.58-1+b2 install ok installed libcryptsetup4:amd64 libcryptsetup4 2:1.6.6-5 install ok installed libdata-optlist-perl libdata-optlist-perl 0.109-1 install ok installed libdata-section-perl libdata-section-perl 0.200006-1 install ok installed libdb5.1:amd64 libdb5.1 5.1.29-5 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-9+deb8u1 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.8.22-0+deb8u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.192 install ok installed libdevmapper1.02.1:amd64 libdevmapper1.02.1 2:1.02.90-2.2+deb8u1 install ok installed libdns-export100 libdns-export100 1:9.9.5.dfsg-9+deb8u14 install ok installed libencode-locale-perl libencode-locale-perl 1.03-1 install ok installed libexpat1:amd64 libexpat1 2.1.0-6+deb8u4 install ok installed libfcgi-perl libfcgi-perl 0.77-1+deb8u1 install ok installed libffi5:amd64 libffi5 3.0.10-3 install ok installed libffi6:amd64 libffi6 3.1-2+deb8u1 install ok installed libfile-listing-perl libfile-listing-perl 6.04-1 install ok installed libfont-afm-perl libfont-afm-perl 1.20-1 install ok installed libgcc1:amd64 libgcc1 1:4.9.2-10 install ok installed libgcrypt11:amd64 libgcrypt11 1.5.0-5+deb7u4 install ok installed libgcrypt20:amd64 libgcrypt20 1.6.3-2+deb8u4 install ok installed libgdbm3:amd64 libgdbm3 1.8.3-13.1 install ok installed libgfortran3:amd64 libgfortran3 4.9.2-10 install ok installed libgmp10:amd64 libgmp10 2:6.0.0+dfsg-6 install ok installed libgnutls-deb0-28:amd64 libgnutls-deb0-28 3.3.8-6+deb8u7 install ok installed libgnutls26:amd64 libgnutls26 2.12.20-8+deb7u5 install ok installed libgomp1:amd64 libgomp1 4.9.2-10 install ok installed libgpg-error0:amd64 libgpg-error0 1.17-3 install ok installed libgpm2:amd64 libgpm2 1.20.4-6.1+b2 install ok installed libhogweed2:amd64 libhogweed2 2.7.1-5+deb8u2 install ok installed libhtml-form-perl libhtml-form-perl 6.03-1 install ok installed libhtml-format-perl libhtml-format-perl 2.11-1 install ok installed libhtml-parser-perl libhtml-parser-perl 3.71-1+b3 install ok installed libhtml-tagset-perl libhtml-tagset-perl 3.20-2 install ok installed libhtml-tree-perl libhtml-tree-perl 5.03-1 install ok installed libhttp-cookies-perl libhttp-cookies-perl 6.01-1 install ok installed libhttp-daemon-perl libhttp-daemon-perl 6.01-1 install ok installed libhttp-date-perl libhttp-date-perl 6.02-1 install ok installed libhttp-message-perl libhttp-message-perl 6.06-1 install ok installed libhttp-negotiate-perl libhttp-negotiate-perl 6.00-2 install ok installed libidn11:amd64 libidn11 1.29-1+deb8u2 install ok installed libio-html-perl libio-html-perl 1.001-1 install ok installed libio-sessiondata-perl libio-sessiondata-perl 1.03-1 install ok installed libio-socket-ip-perl libio-socket-ip-perl 0.32-1 install ok installed libio-socket-ssl-perl libio-socket-ssl-perl 2.002-2+deb8u3 install ok installed libio-stringy-perl libio-stringy-perl 2.110-5 install ok installed libirs-export91 libirs-export91 1:9.9.5.dfsg-9+deb8u14 install ok installed libisc-export95 libisc-export95 1:9.9.5.dfsg-9+deb8u14 install ok installed libisccfg-export90 libisccfg-export90 1:9.9.5.dfsg-9+deb8u14 install ok installed libjs-jquery libjs-jquery 1.7.2+dfsg-3.2 install ok installed libkmod2:amd64 libkmod2 18-3 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.05-8+b1 install ok installed liblog-message-perl liblog-message-perl 0.8-1 install ok installed liblog-message-simple-perl liblog-message-simple-perl 0.10-2 install ok installed liblwp-mediatypes-perl liblwp-mediatypes-perl 6.02-1 install ok installed liblwp-protocol-https-perl liblwp-protocol-https-perl 6.06-2 install ok installed liblzma5:amd64 liblzma5 5.1.1alpha+20120614-2+b3 install ok installed libmagic1:amd64 libmagic1 1:5.22+15-2+deb8u3 install ok installed libmailtools-perl libmailtools-perl 2.13-1 install ok installed libmime-tools-perl libmime-tools-perl 5.505-1 install ok installed libmodule-build-perl libmodule-build-perl 0.421000-2+deb8u1 install ok installed libmodule-pluggable-perl libmodule-pluggable-perl 5.1-1 install ok installed libmodule-signature-perl libmodule-signature-perl 0.73-1+deb8u2 install ok installed libmount1:amd64 libmount1 2.25.2-6 install ok installed libmro-compat-perl libmro-compat-perl 0.12-1 install ok installed libncbi6:amd64 libncbi6 6.1.20120620-8 install ok installed libncurses5:amd64 libncurses5 5.9+20140913-1+deb8u2 install ok installed libncursesw5:amd64 libncursesw5 5.9+20140913-1+deb8u2 install ok installed libnet-http-perl libnet-http-perl 6.07-1 install ok installed libnet-smtp-ssl-perl libnet-smtp-ssl-perl 1.01-3 install ok installed libnet-ssleay-perl libnet-ssleay-perl 1.65-1+deb8u1 install ok installed libnettle4:amd64 libnettle4 2.7.1-5+deb8u2 install ok installed libossp-uuid-perl libossp-uuid-perl 1.6.2-1.5+b1 install ok installed libossp-uuid16:amd64 libossp-uuid16 1.6.2-1.5+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.20.7-1 install ok installed libpackage-constants-perl libpackage-constants-perl 0.04-1 install ok installed libpam-cap:amd64 libpam-cap 1:2.24-8 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.1+deb8u2+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.1+deb8u2+b1 install ok installed libpam-runtime libpam-runtime 1.1.8-3.1+deb8u2 install ok installed libpam-systemd:amd64 libpam-systemd 215-17+deb8u7 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.1+deb8u2+b1 install ok installed libparams-util-perl libparams-util-perl 1.07-2+b1 install ok installed libpcre3:amd64 libpcre3 2:8.35-3.3+deb8u4 install ok installed libpod-latex-perl libpod-latex-perl 0.61-1 install ok installed libpod-readme-perl libpod-readme-perl 0.11-1 install ok installed libprocps3:amd64 libprocps3 2:3.3.9-9 install ok installed libpython-stdlib:amd64 libpython-stdlib 2.7.9-1 install ok installed libpython2.7-minimal:amd64 libpython2.7-minimal 2.7.9-2+deb8u1 install ok installed libpython2.7-stdlib:amd64 libpython2.7-stdlib 2.7.9-2+deb8u1 install ok installed libquadmath0:amd64 libquadmath0 4.9.2-10 install ok installed libreadline6:amd64 libreadline6 6.3-8+b3 install ok installed libregexp-common-perl libregexp-common-perl 2013031301-1 install ok installed libruby1.9.1 libruby1.9.1 1.9.3.194-8.1+deb7u5 install ok installed libruby2.1:amd64 libruby2.1 2.1.5-2+deb8u3 install ok installed libselinux1:amd64 libselinux1 2.3-2 install ok installed libsemanage-common libsemanage-common 2.3-1 install ok installed libsemanage1:amd64 libsemanage1 2.3-1+b1 install ok installed libsepol1:amd64 libsepol1 2.3-2 install ok installed libslang2:amd64 libslang2 2.3.0-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.25.2-6 install ok installed libsoap-lite-perl libsoap-lite-perl 1.11-1 install ok installed libsocket-perl libsocket-perl 2.016-1 install ok installed libsoftware-license-perl libsoftware-license-perl 0.103010-3 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.8.7.1-1+deb8u2 install ok installed libss2:amd64 libss2 1.42.12-2+b1 install ok installed libssl1.0.0:amd64 libssl1.0.0 1.0.1t-1+deb8u7 install ok installed libstdc++6:amd64 libstdc++6 4.9.2-10 install ok installed libsub-exporter-perl libsub-exporter-perl 0.986-1 install ok installed libsub-install-perl libsub-install-perl 0.928-1 install ok installed libswitch-perl libswitch-perl 2.17-2 install ok installed libsystemd0:amd64 libsystemd0 215-17+deb8u7 install ok installed libtask-weaken-perl libtask-weaken-perl 1.04-1 install ok installed libtasn1-3:amd64 libtasn1-3 2.13-2+deb7u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.2-3+deb8u3 install ok installed libterm-ui-perl libterm-ui-perl 0.42-1 install ok installed libtext-charwidth-perl libtext-charwidth-perl 0.04-7+b3 install ok installed libtext-iconv-perl libtext-iconv-perl 1.7-5+b2 install ok installed libtext-soundex-perl libtext-soundex-perl 3.4-1+b2 install ok installed libtext-template-perl libtext-template-perl 1.46-1 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-7 install ok installed libtimedate-perl libtimedate-perl 2.3000-2 install ok installed libtinfo5:amd64 libtinfo5 5.9+20140913-1+deb8u2 install ok installed libudev1:amd64 libudev1 215-17+deb8u7 install ok installed liburi-perl liburi-perl 1.64-1 install ok installed libusb-0.1-4:amd64 libusb-0.1-4 2:0.1.12-25 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-3+b2 install ok installed libuuid1:amd64 libuuid1 2.25.2-6 install ok installed libwww-perl libwww-perl 6.08-1 install ok installed libwww-robotrules-perl libwww-robotrules-perl 6.01-1 install ok installed libxml-namespacesupport-perl libxml-namespacesupport-perl 1.11-1 install ok installed libxml-parser-perl libxml-parser-perl 2.41-3 install ok installed libxml-sax-base-perl libxml-sax-base-perl 1.07-1 install ok installed libxml-sax-expat-perl libxml-sax-expat-perl 0.40-2 install ok installed libxml-sax-perl libxml-sax-perl 0.99+dfsg-2 install ok installed libxml-simple-perl libxml-simple-perl 2.20-1 install ok installed libxmlrpc-lite-perl libxmlrpc-lite-perl 0.717-1 install ok installed libxtables10 libxtables10 1.4.21-2+b1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.1.6-3 install ok installed login login 1:4.2-3+deb8u4 install ok installed lsb-base lsb-base 4.1+Debian13+nmu1 install ok installed lynx lynx 2.8.9dev1-2+deb8u1 install ok installed lynx-cur lynx-cur 2.8.9dev1-2+deb8u1 install ok installed mafft mafft 7.205-1 install ok installed mawk mawk 1.3.3-17 install ok installed mime-support mime-support 3.58 install ok installed mount mount 2.25.2-6 install ok installed multiarch-support multiarch-support 2.19-18+deb8u10 install ok installed muscle muscle 1:3.8.31-1 install ok installed mustang mustang 3.2.2-1 install ok installed ncbi-blast+ ncbi-blast+ 2.2.29-3 install ok installed ncbi-data ncbi-data 6.1.20120620-8 install ok installed ncurses-base ncurses-base 5.9+20140913-1+deb8u2 install ok installed ncurses-bin ncurses-bin 5.9+20140913-1+deb8u2 install ok installed netbase netbase 5.3 install ok installed openssl openssl 1.0.1t-1+deb8u7 install ok installed passwd passwd 1:4.2-3+deb8u4 install ok installed perl perl 5.20.2-3+deb8u9 install ok installed perl-base perl-base 5.20.2-3+deb8u9 install ok installed perl-modules perl-modules 5.20.2-3+deb8u9 install ok installed poa poa 2.0+20060928-3 install ok installed prank prank 0.0.140110-1 install ok installed probcons probcons 1.12-9 install ok installed procps procps 2:3.3.9-9 install ok installed proda proda 1.0-8 install ok installed psmisc psmisc 22.21-2 install ok installed python python 2.7.9-1 install ok installed python-minimal python-minimal 2.7.9-1 install ok installed python2.7 python2.7 2.7.9-2+deb8u1 install ok installed python2.7-minimal python2.7-minimal 2.7.9-2+deb8u1 install ok installed readline-common readline-common 6.3-8 install ok installed rename rename 0.20-3 install ok installed ruby ruby 1:2.1.5+deb8u2 install ok installed ruby-bio ruby-bio 1.4.3.0001-2 install ok installed ruby1.9.1 ruby1.9.1 1.9.3.194-8.1+deb7u5 install ok installed ruby2.1 ruby2.1 2.1.5-2+deb8u3 install ok installed rubygems-integration rubygems-integration 1.8 install ok installed sed sed 4.2.2-4+deb8u1 install ok installed sensible-utils sensible-utils 0.0.9 install ok installed sim4 sim4 0.0.20121010-1 install ok installed startpar startpar 0.59-3 install ok installed systemd systemd 215-17+deb8u7 install ok installed systemd-sysv systemd-sysv 215-17+deb8u7 install ok installed sysv-rc sysv-rc 2.88dsf-59 install ok installed sysvinit sysvinit 2.88dsf-59 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59 install ok installed t-coffee t-coffee 11.00.8cbe486-1 install ok installed tar tar 1.27.1-2+deb8u1 install ok installed tm-align tm-align 20140601+dfsg-1 install ok installed tzdata tzdata 2017c-0+deb8u1 install ok installed ucf ucf 3.0030 install ok installed udev udev 215-17+deb8u7 install ok installed util-linux util-linux 2.25.2-6 install ok installed xz-utils xz-utils 5.1.1alpha+20120614-2+b3 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-2+b1 1m52.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m54.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', '-ac', '--ignore-obsolete'] 1m58.7s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', '-ac', '--ignore-obsolete'] 1m58.7s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m58.8s DUMP: 0.15.1 1m58.8s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m58.8s INFO: Running adequate version 0.15.1 now. 1m58.8s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'ruby-bio'] 1m59.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'ruby-bio'] 1m59.0s INFO: Running scripts pre_remove 1m59.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m59.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m59.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m59.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m59.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_exceptions'] 2m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/pre_remove_exceptions'] 2m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'remove', 'libnet-ssleay-perl', 'libxml-sax-expat-perl', 'libmime-tools-perl', 'iproute', 'libmailtools-perl', 'isc-dhcp-common', 'libjs-jquery', 'liblog-message-perl', 'lynx-cur', 'libargtable2-0', 'libmodule-build-perl', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'libnettle4:amd64', 'libclass-c3-perl', 'libmro-compat-perl', 'libclass-c3-xs-perl', 'sim4', 'python', 'libio-html-perl', 'libalgorithm-c3-perl', 'libsoftware-license-perl', 'libtext-template-perl', 'libtext-soundex-perl', 'ca-certificates', 'libfile-listing-perl', 'libp11-kit0:amd64', 'libbsd0:amd64', 'libio-stringy-perl', 'libpython2.7-stdlib:amd64', 'libxml-namespacesupport-perl', 'libisc-export95', 'libgnutls26:amd64', 'libcpan-meta-perl', 'liblog-message-simple-perl', 'dialign-tx', 'poa', 'libsoap-lite-perl', 'libio-socket-ssl-perl', 'libgcrypt11:amd64', 'libfont-afm-perl', 'libsub-install-perl', 'hmmer', 'libmagic1:amd64', 'mustang', 'ruby1.9.1', 'libwww-perl', 'libpackage-constants-perl', 'libgomp1:amd64', 'libpod-readme-perl', 'libsub-exporter-perl', 'blast2', 'rubygems-integration', 'libgmp10:amd64', 'libquadmath0:amd64', 'libxml-sax-base-perl', 'libio-sessiondata-perl', 'libhtml-format-perl', 'mafft', 'libossp-uuid-perl', 'libhtml-parser-perl', 'libhttp-message-perl', 'libcrypt-ssleay-perl', 'python2.7', 'libxml-sax-perl', 'libgnutls-deb0-28:amd64', 'libcgi-fast-perl', 'libhtml-form-perl', 'probcons', 'libxml-parser-perl', 'dialign-tx-data', 'python-minimal', 'libclass-inspector-perl', 'libruby2.1:amd64', 'ncbi-data', 'libregexp-common-perl', 'libhtml-tagset-perl', 'libencode-locale-perl', 'libxmlrpc-lite-perl', 't-coffee', 'libpython-stdlib:amd64', 'libdata-section-perl', 'libxml-simple-perl', 'libconvert-binhex-perl', 'libossp-uuid16:amd64', 'libtasn1-3:amd64', 'libcgi-pm-perl', 'mime-support', 'prank', 'libclass-isa-perl', 'libatm1:amd64', 'libhttp-negotiate-perl', 'libterm-ui-perl', 'perl', 'libsqlite3-0:amd64', 'libhttp-daemon-perl', 'libio-socket-ip-perl', 'ruby2.1', 'netbase', 'libpod-latex-perl', 'libdb5.1:amd64', 'libtasn1-6:amd64', 'libruby1.9.1', 'libhttp-cookies-perl', 'libfcgi-perl', 'libauthen-sasl-perl', 'libnet-smtp-ssl-perl', 'libmodule-pluggable-perl', 'libtask-weaken-perl', 'ruby', 'ncbi-blast+', 'liblwp-mediatypes-perl', 'clustalw', 'libncbi6:amd64', 'kalign', 'libffi6:amd64', 'libwww-robotrules-perl', 'libisccfg-export90', 'libdns-export100', 'lynx', 'libarchive-extract-perl', 'clustalo', 'rename', 'ifupdown', 'openssl', 'libffi5:amd64', 'libpython2.7-minimal:amd64', 'file', 'proda', 'libgfortran3:amd64', 'libxtables10', 'libdata-optlist-perl', 'libsocket-perl', 'libtimedate-perl', 'libyaml-0-2:amd64', 'libmodule-signature-perl', 'libnet-http-perl', 'liburi-perl', 'tm-align', 'perl-modules', 'libirs-export91', 'liblwp-protocol-https-perl', 'libidn11:amd64', 'javascript-common', 'muscle', 'libhtml-tree-perl', 'libswitch-perl', 'isc-dhcp-client', 'libhttp-date-perl', 'python2.7-minimal', 'amap-align', 'iproute2', 'libhogweed2:amd64', 'libparams-util-perl', 'ruby-bio'] 2m9.6s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: amap-align blast2 ca-certificates clustalo clustalw dialign-tx dialign-tx-data file hmmer ifupdown iproute iproute2 isc-dhcp-client isc-dhcp-common javascript-common kalign libalgorithm-c3-perl libarchive-extract-perl libargtable2-0 libatm1 libauthen-sasl-perl libbsd0 libcgi-fast-perl libcgi-pm-perl libclass-c3-perl libclass-c3-xs-perl libclass-inspector-perl libclass-isa-perl libconvert-binhex-perl libcpan-meta-perl libcrypt-ssleay-perl libdata-optlist-perl libdata-section-perl libdb5.1 libdns-export100 libencode-locale-perl libfcgi-perl libffi5 libffi6 libfile-listing-perl libfont-afm-perl libgcrypt11 libgdbm3 libgfortran3 libgmp10 libgnutls-deb0-28 libgnutls26 libgomp1 libhogweed2 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libidn11 libio-html-perl libio-sessiondata-perl libio-socket-ip-perl libio-socket-ssl-perl libio-stringy-perl libirs-export91 libisc-export95 libisccfg-export90 libjs-jquery liblog-message-perl liblog-message-simple-perl liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libmailtools-perl libmime-tools-perl libmodule-build-perl libmodule-pluggable-perl libmodule-signature-perl libmro-compat-perl libncbi6 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnettle4 libossp-uuid-perl libossp-uuid16 libp11-kit0 libpackage-constants-perl libparams-util-perl libpod-latex-perl libpod-readme-perl libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 libregexp-common-perl libruby1.9.1 libruby2.1 libsoap-lite-perl libsocket-perl libsoftware-license-perl libsqlite3-0 libssl1.0.0 libsub-exporter-perl libsub-install-perl libswitch-perl libtask-weaken-perl libtasn1-3 libtasn1-6 libterm-ui-perl libtext-soundex-perl libtext-template-perl libtimedate-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-simple-perl libxmlrpc-lite-perl libxtables10 libyaml-0-2 lynx lynx-cur mafft mime-support muscle mustang ncbi-blast+ ncbi-data netbase openssl perl perl-modules poa prank probcons proda python python-minimal python2.7 python2.7-minimal rename ruby ruby-bio ruby1.9.1 ruby2.1 rubygems-integration sim4 t-coffee tm-align 0 upgraded, 0 newly installed, 155 to remove and 0 not upgraded. After this operation, 229 MB disk space will be freed. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 15213 files and directories currently installed.) Removing amap-align (2.2-4) ... Removing blast2 (1:2.2.26.20120620-8) ... Removing ruby-bio (1.4.3.0001-2) ... Removing ruby (1:2.1.5+deb8u2) ... Removing ruby2.1 (2.1.5-2+deb8u3) ... Removing rubygems-integration (1.8) ... Removing libxml-simple-perl (2.20-1) ... Removing libxml-sax-expat-perl (0.40-2) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::Expat with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Removing clustalo (1.2.1-1) ... Removing clustalw (2.1+lgpl-4) ... Removing dialign-tx (1.0.2-7) ... Removing dialign-tx-data (1.0.2-7) ... Removing file (1:5.22+15-2+deb8u3) ... Removing hmmer (3.1b1-3) ... Removing ifupdown (0.7.53.1) ... Removing iproute (1:3.16.0-2) ... Removing isc-dhcp-client (4.3.1-6+deb8u2) ... Removing iproute2 (3.16.0-2) ... Removing isc-dhcp-common (4.3.1-6+deb8u2) ... Removing javascript-common (11) ... Removing kalign (1:2.03+20110620-2) ... Removing libsoftware-license-perl (0.103010-3) ... Removing libdata-section-perl (0.200006-1) ... Removing libmro-compat-perl (0.12-1) ... Removing libclass-c3-perl (0.26-1) ... Removing libalgorithm-c3-perl (0.09-1) ... Removing libarchive-extract-perl (0.72-1) ... Removing libargtable2-0 (12-1.1) ... Removing libatm1:amd64 (1:2.5.1-1.5) ... Removing libauthen-sasl-perl (2.1600-1) ... Removing lynx (2.8.9dev1-2+deb8u1) ... Removing lynx-cur (2.8.9dev1-2+deb8u1) ... Removing libbsd0:amd64 (0.7.0-2) ... Removing libcgi-fast-perl (1:2.04-1) ... Removing libcgi-pm-perl (4.09-1) ... Removing libclass-c3-xs-perl (0.13-2+b1) ... Removing libxmlrpc-lite-perl (0.717-1) ... Removing libsoap-lite-perl (1.11-1) ... Removing libclass-inspector-perl (1.28-1) ... Removing libclass-isa-perl (0.36-5) ... Removing libmime-tools-perl (5.505-1) ... Removing libconvert-binhex-perl (1.123-2) ... Removing libmodule-build-perl (0.421000-2+deb8u1) ... Removing 'diversion of /usr/bin/config_data to /usr/bin/config_data.diverted by libmodule-build-perl' Removing 'diversion of /usr/share/man/man1/config_data.1.gz to /usr/share/man/man1/config_data.diverted.1.gz by libmodule-build-perl' Removing libcpan-meta-perl (2.142690-1) ... Removing libcrypt-ssleay-perl (0.58-1+b2) ... Removing libsub-exporter-perl (0.986-1) ... Removing libdata-optlist-perl (0.109-1) ... Removing libdb5.1:amd64 (5.1.29-5) ... Removing libirs-export91 (1:9.9.5.dfsg-9+deb8u14) ... Removing libdns-export100 (1:9.9.5.dfsg-9+deb8u14) ... Removing libfcgi-perl (0.77-1+deb8u1) ... Removing ruby1.9.1 (1.9.3.194-8.1+deb7u5) ... Removing libruby1.9.1 (1.9.3.194-8.1+deb7u5) ... Removing libffi5:amd64 (3.0.10-3) ... Removing libruby2.1:amd64 (2.1.5-2+deb8u3) ... Removing ncbi-blast+ (2.2.29-3) ... Removing python (2.7.9-1) ... Removing python2.7 (2.7.9-2+deb8u1) ... Removing libhtml-format-perl (2.11-1) ... Removing libfont-afm-perl (1.20-1) ... Removing libgnutls26:amd64 (2.12.20-8+deb7u5) ... Removing libgcrypt11:amd64 (1.5.0-5+deb7u4) ... Removing rename (0.20-3) ... update-alternatives: using /usr/bin/prename to provide /usr/bin/rename (rename) in auto mode Removing libossp-uuid-perl (1.6.2-1.5+b1) ... Removing tm-align (20140601+dfsg-1) ... Removing libgfortran3:amd64 (4.9.2-10) ... Removing libgnutls-deb0-28:amd64 (3.3.8-6+deb8u7) ... Removing libhogweed2:amd64 (2.7.1-5+deb8u2) ... Removing libgmp10:amd64 (2:6.0.0+dfsg-6) ... Removing libgomp1:amd64 (4.9.2-10) ... Removing libhtml-form-perl (6.03-1) ... Removing libhttp-daemon-perl (6.01-1) ... Removing libidn11:amd64 (1.29-1+deb8u2) ... Removing libio-sessiondata-perl (1.03-1) ... Removing libio-socket-ip-perl (0.32-1) ... Removing libmailtools-perl (2.13-1) ... Removing libnet-smtp-ssl-perl (1.01-3) ... Removing libio-stringy-perl (2.110-5) ... Removing libisccfg-export90 (1:9.9.5.dfsg-9+deb8u14) ... Removing libisc-export95 (1:9.9.5.dfsg-9+deb8u14) ... Removing libjs-jquery (1.7.2+dfsg-3.2) ... Removing libterm-ui-perl (0.42-1) ... Removing liblog-message-simple-perl (0.10-2) ... Removing liblog-message-perl (0.8-1) ... Removing libmagic1:amd64 (1:5.22+15-2+deb8u3) ... Removing libmodule-pluggable-perl (5.1-1) ... Removing libmodule-signature-perl (0.73-1+deb8u2) ... Removing libncbi6:amd64 (6.1.20120620-8) ... Removing libnettle4:amd64 (2.7.1-5+deb8u2) ... Removing libossp-uuid16:amd64 (1.6.2-1.5+b1) ... Removing libp11-kit0:amd64 (0.20.7-1) ... Removing libpackage-constants-perl (0.04-1) ... Removing libparams-util-perl (1.07-2+b1) ... Removing libpod-latex-perl (0.61-1) ... Removing 'diversion of /usr/bin/pod2latex to /usr/bin/pod2latex.bundled by libpod-latex-perl' Removing 'diversion of /usr/share/man/man1/pod2latex.1.gz to /usr/share/man/man1/pod2latex.bundled.1.gz by libpod-latex-perl' Removing libpod-readme-perl (0.11-1) ... Removing libpython-stdlib:amd64 (2.7.9-1) ... Removing python-minimal (2.7.9-1) ... Removing python2.7-minimal (2.7.9-2+deb8u1) ... Removing libquadmath0:amd64 (4.9.2-10) ... Removing libregexp-common-perl (2013031301-1) ... Removing libsocket-perl (2.016-1) ... Removing libsub-install-perl (0.928-1) ... Removing libswitch-perl (2.17-2) ... Removing libtask-weaken-perl (1.04-1) ... Removing libtasn1-3:amd64 (2.13-2+deb7u2) ... Removing libtasn1-6:amd64 (4.2-3+deb8u3) ... Removing libtext-soundex-perl (3.4-1+b2) ... Removing libtext-template-perl (1.46-1) ... Removing libxml-sax-perl (0.99+dfsg-2) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::PurePerl with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Removing libxml-namespacesupport-perl (1.11-1) ... Removing libxml-sax-base-perl (1.07-1) ... Removing libxtables10 (1.4.21-2+b1) ... Removing libyaml-0-2:amd64 (0.1.6-3) ... Removing mafft (7.205-1) ... Removing muscle (1:3.8.31-1) ... Removing mustang (3.2.2-1) ... Removing ncbi-data (6.1.20120620-8) ... Removing poa (2.0+20060928-3) ... Removing prank (0.0.140110-1) ... Removing probcons (1.12-9) ... Removing proda (1.0-8) ... Removing sim4 (0.0.20121010-1) ... Removing t-coffee (11.00.8cbe486-1) ... Removing libxml-parser-perl (2.41-3) ... Removing libpython2.7-stdlib:amd64 (2.7.9-2+deb8u1) ... Removing libffi6:amd64 (3.1-2+deb8u1) ... Removing libpython2.7-minimal:amd64 (2.7.9-2+deb8u1) ... Removing libsqlite3-0:amd64 (3.8.7.1-1+deb8u2) ... Removing mime-support (3.58) ... Removing libwww-perl (6.08-1) ... Removing libhttp-negotiate-perl (6.00-2) ... Removing libfile-listing-perl (6.04-1) ... Removing libhtml-tree-perl (5.03-1) ... Removing libhtml-parser-perl (3.71-1+b3) ... Removing libhtml-tagset-perl (3.20-2) ... Removing libhttp-cookies-perl (6.01-1) ... Removing liblwp-protocol-https-perl (6.06-2) ... Removing libnet-http-perl (6.07-1) ... Removing libio-socket-ssl-perl (2.002-2+deb8u3) ... Removing libnet-ssleay-perl (1.65-1+deb8u1) ... Removing libwww-robotrules-perl (6.01-1) ... Removing netbase (5.3) ... Removing ca-certificates (20141019+deb8u3) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libhttp-message-perl (6.06-1) ... Removing libencode-locale-perl (1.03-1) ... Removing libhttp-date-perl (6.02-1) ... Removing libio-html-perl (1.001-1) ... Removing liblwp-mediatypes-perl (6.02-1) ... Removing openssl (1.0.1t-1+deb8u7) ... Removing libssl1.0.0:amd64 (1.0.1t-1+deb8u7) ... Removing libtimedate-perl (2.3000-2) ... Removing liburi-perl (1.64-1) ... Removing perl (5.20.2-3+deb8u9) ... Removing libgdbm3:amd64 (1.8.3-13.1) ... Removing perl-modules (5.20.2-3+deb8u9) ... Processing triggers for libc-bin (2.19-18+deb8u10) ... 2m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'remove', 'libnet-ssleay-perl', 'libxml-sax-expat-perl', 'libmime-tools-perl', 'iproute', 'libmailtools-perl', 'isc-dhcp-common', 'libjs-jquery', 'liblog-message-perl', 'lynx-cur', 'libargtable2-0', 'libmodule-build-perl', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'libnettle4:amd64', 'libclass-c3-perl', 'libmro-compat-perl', 'libclass-c3-xs-perl', 'sim4', 'python', 'libio-html-perl', 'libalgorithm-c3-perl', 'libsoftware-license-perl', 'libtext-template-perl', 'libtext-soundex-perl', 'ca-certificates', 'libfile-listing-perl', 'libp11-kit0:amd64', 'libbsd0:amd64', 'libio-stringy-perl', 'libpython2.7-stdlib:amd64', 'libxml-namespacesupport-perl', 'libisc-export95', 'libgnutls26:amd64', 'libcpan-meta-perl', 'liblog-message-simple-perl', 'dialign-tx', 'poa', 'libsoap-lite-perl', 'libio-socket-ssl-perl', 'libgcrypt11:amd64', 'libfont-afm-perl', 'libsub-install-perl', 'hmmer', 'libmagic1:amd64', 'mustang', 'ruby1.9.1', 'libwww-perl', 'libpackage-constants-perl', 'libgomp1:amd64', 'libpod-readme-perl', 'libsub-exporter-perl', 'blast2', 'rubygems-integration', 'libgmp10:amd64', 'libquadmath0:amd64', 'libxml-sax-base-perl', 'libio-sessiondata-perl', 'libhtml-format-perl', 'mafft', 'libossp-uuid-perl', 'libhtml-parser-perl', 'libhttp-message-perl', 'libcrypt-ssleay-perl', 'python2.7', 'libxml-sax-perl', 'libgnutls-deb0-28:amd64', 'libcgi-fast-perl', 'libhtml-form-perl', 'probcons', 'libxml-parser-perl', 'dialign-tx-data', 'python-minimal', 'libclass-inspector-perl', 'libruby2.1:amd64', 'ncbi-data', 'libregexp-common-perl', 'libhtml-tagset-perl', 'libencode-locale-perl', 'libxmlrpc-lite-perl', 't-coffee', 'libpython-stdlib:amd64', 'libdata-section-perl', 'libxml-simple-perl', 'libconvert-binhex-perl', 'libossp-uuid16:amd64', 'libtasn1-3:amd64', 'libcgi-pm-perl', 'mime-support', 'prank', 'libclass-isa-perl', 'libatm1:amd64', 'libhttp-negotiate-perl', 'libterm-ui-perl', 'perl', 'libsqlite3-0:amd64', 'libhttp-daemon-perl', 'libio-socket-ip-perl', 'ruby2.1', 'netbase', 'libpod-latex-perl', 'libdb5.1:amd64', 'libtasn1-6:amd64', 'libruby1.9.1', 'libhttp-cookies-perl', 'libfcgi-perl', 'libauthen-sasl-perl', 'libnet-smtp-ssl-perl', 'libmodule-pluggable-perl', 'libtask-weaken-perl', 'ruby', 'ncbi-blast+', 'liblwp-mediatypes-perl', 'clustalw', 'libncbi6:amd64', 'kalign', 'libffi6:amd64', 'libwww-robotrules-perl', 'libisccfg-export90', 'libdns-export100', 'lynx', 'libarchive-extract-perl', 'clustalo', 'rename', 'ifupdown', 'openssl', 'libffi5:amd64', 'libpython2.7-minimal:amd64', 'file', 'proda', 'libgfortran3:amd64', 'libxtables10', 'libdata-optlist-perl', 'libsocket-perl', 'libtimedate-perl', 'libyaml-0-2:amd64', 'libmodule-signature-perl', 'libnet-http-perl', 'liburi-perl', 'tm-align', 'perl-modules', 'libirs-export91', 'liblwp-protocol-https-perl', 'libidn11:amd64', 'javascript-common', 'muscle', 'libhtml-tree-perl', 'libswitch-perl', 'isc-dhcp-client', 'libhttp-date-perl', 'python2.7-minimal', 'amap-align', 'iproute2', 'libhogweed2:amd64', 'libparams-util-perl', 'ruby-bio'] 2m9.6s INFO: Running scripts post_remove 2m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_remove_exceptions'] 2m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_remove_exceptions'] 2m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_remove_extras'] 2m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_remove_extras'] 2m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--purge', 'libnet-ssleay-perl', 'libxml-sax-expat-perl', 'libmime-tools-perl', 'iproute', 'libmailtools-perl', 'isc-dhcp-common', 'libjs-jquery', 'liblog-message-perl', 'lynx-cur', 'libargtable2-0', 'libmodule-build-perl', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'libnettle4:amd64', 'libclass-c3-perl', 'libmro-compat-perl', 'libclass-c3-xs-perl', 'sim4', 'python', 'libio-html-perl', 'libalgorithm-c3-perl', 'libsoftware-license-perl', 'libtext-template-perl', 'libtext-soundex-perl', 'ca-certificates', 'libfile-listing-perl', 'libp11-kit0:amd64', 'libbsd0:amd64', 'libio-stringy-perl', 'libpython2.7-stdlib:amd64', 'libxml-namespacesupport-perl', 'libisc-export95', 'libgnutls26:amd64', 'libcpan-meta-perl', 'liblog-message-simple-perl', 'dialign-tx', 'poa', 'libsoap-lite-perl', 'libio-socket-ssl-perl', 'libgcrypt11:amd64', 'libfont-afm-perl', 'libsub-install-perl', 'hmmer', 'libmagic1:amd64', 'mustang', 'ruby1.9.1', 'libwww-perl', 'libpackage-constants-perl', 'libgomp1:amd64', 'libpod-readme-perl', 'libsub-exporter-perl', 'blast2', 'rubygems-integration', 'libgmp10:amd64', 'libquadmath0:amd64', 'libxml-sax-base-perl', 'libio-sessiondata-perl', 'libhtml-format-perl', 'mafft', 'libossp-uuid-perl', 'libhtml-parser-perl', 'libhttp-message-perl', 'libcrypt-ssleay-perl', 'python2.7', 'libxml-sax-perl', 'libgnutls-deb0-28:amd64', 'libcgi-fast-perl', 'libhtml-form-perl', 'probcons', 'libxml-parser-perl', 'dialign-tx-data', 'python-minimal', 'libclass-inspector-perl', 'libruby2.1:amd64', 'ncbi-data', 'libregexp-common-perl', 'libhtml-tagset-perl', 'libencode-locale-perl', 'libxmlrpc-lite-perl', 't-coffee', 'libpython-stdlib:amd64', 'libdata-section-perl', 'libxml-simple-perl', 'libconvert-binhex-perl', 'libossp-uuid16:amd64', 'libtasn1-3:amd64', 'libcgi-pm-perl', 'mime-support', 'prank', 'libclass-isa-perl', 'libatm1:amd64', 'libhttp-negotiate-perl', 'libterm-ui-perl', 'perl', 'libsqlite3-0:amd64', 'libhttp-daemon-perl', 'libio-socket-ip-perl', 'ruby2.1', 'netbase', 'libpod-latex-perl', 'libdb5.1:amd64', 'libtasn1-6:amd64', 'libruby1.9.1', 'libhttp-cookies-perl', 'libfcgi-perl', 'libauthen-sasl-perl', 'libnet-smtp-ssl-perl', 'libmodule-pluggable-perl', 'libtask-weaken-perl', 'ruby', 'ncbi-blast+', 'liblwp-mediatypes-perl', 'clustalw', 'libncbi6:amd64', 'kalign', 'libffi6:amd64', 'libwww-robotrules-perl', 'libisccfg-export90', 'libdns-export100', 'lynx', 'libarchive-extract-perl', 'clustalo', 'rename', 'ifupdown', 'openssl', 'libffi5:amd64', 'libpython2.7-minimal:amd64', 'file', 'proda', 'libgfortran3:amd64', 'libxtables10', 'libdata-optlist-perl', 'libsocket-perl', 'libtimedate-perl', 'libyaml-0-2:amd64', 'libmodule-signature-perl', 'libnet-http-perl', 'liburi-perl', 'tm-align', 'perl-modules', 'libirs-export91', 'liblwp-protocol-https-perl', 'libidn11:amd64', 'javascript-common', 'muscle', 'libhtml-tree-perl', 'libswitch-perl', 'isc-dhcp-client', 'libhttp-date-perl', 'python2.7-minimal', 'amap-align', 'iproute2', 'libhogweed2:amd64', 'libparams-util-perl'] 2m10.7s DUMP: dpkg: warning: ignoring request to remove libnet-ssleay-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-expat-perl which isn't installed dpkg: warning: ignoring request to remove libmime-tools-perl which isn't installed (Reading database ... 7706 files and directories currently installed.) Removing iproute (1:3.16.0-2) ... Purging configuration files for iproute (1:3.16.0-2) ... dpkg: warning: ignoring request to remove libmailtools-perl which isn't installed dpkg: warning: ignoring request to remove isc-dhcp-common which isn't installed dpkg: warning: ignoring request to remove libjs-jquery which isn't installed dpkg: warning: ignoring request to remove liblog-message-perl which isn't installed Removing lynx-cur (2.8.9dev1-2+deb8u1) ... Purging configuration files for lynx-cur (2.8.9dev1-2+deb8u1) ... Removing libargtable2-0 (12-1.1) ... Purging configuration files for libargtable2-0 (12-1.1) ... Removing libmodule-build-perl (0.421000-2+deb8u1) ... Purging configuration files for libmodule-build-perl (0.421000-2+deb8u1) ... Removing libssl1.0.0:amd64 (1.0.1t-1+deb8u7) ... Purging configuration files for libssl1.0.0:amd64 (1.0.1t-1+deb8u7) ... Removing libgdbm3:amd64 (1.8.3-13.1) ... Purging configuration files for libgdbm3:amd64 (1.8.3-13.1) ... Removing libnettle4:amd64 (2.7.1-5+deb8u2) ... Purging configuration files for libnettle4:amd64 (2.7.1-5+deb8u2) ... dpkg: warning: ignoring request to remove libclass-c3-perl which isn't installed dpkg: warning: ignoring request to remove libmro-compat-perl which isn't installed dpkg: warning: ignoring request to remove libclass-c3-xs-perl which isn't installed dpkg: warning: ignoring request to remove sim4 which isn't installed Removing python (2.7.9-1) ... Purging configuration files for python (2.7.9-1) ... dpkg: warning: ignoring request to remove libio-html-perl which isn't installed dpkg: warning: ignoring request to remove libalgorithm-c3-perl which isn't installed dpkg: warning: ignoring request to remove libsoftware-license-perl which isn't installed dpkg: warning: ignoring request to remove libtext-template-perl which isn't installed dpkg: warning: ignoring request to remove libtext-soundex-perl which isn't installed Removing ca-certificates (20141019+deb8u3) ... Purging configuration files for ca-certificates (20141019+deb8u3) ... Removing dangling symlinks from /etc/ssl/certs... done. dpkg: warning: ignoring request to remove libfile-listing-perl which isn't installed Removing libp11-kit0:amd64 (0.20.7-1) ... Purging configuration files for libp11-kit0:amd64 (0.20.7-1) ... Removing libbsd0:amd64 (0.7.0-2) ... Purging configuration files for libbsd0:amd64 (0.7.0-2) ... dpkg: warning: ignoring request to remove libio-stringy-perl which isn't installed dpkg: warning: ignoring request to remove libpython2.7-stdlib which isn't installed dpkg: warning: ignoring request to remove libxml-namespacesupport-perl which isn't installed Removing libisc-export95 (1:9.9.5.dfsg-9+deb8u14) ... Purging configuration files for libisc-export95 (1:9.9.5.dfsg-9+deb8u14) ... Removing libgnutls26:amd64 (2.12.20-8+deb7u5) ... Purging configuration files for libgnutls26:amd64 (2.12.20-8+deb7u5) ... dpkg: warning: ignoring request to remove libcpan-meta-perl which isn't installed dpkg: warning: ignoring request to remove liblog-message-simple-perl which isn't installed dpkg: warning: ignoring request to remove dialign-tx which isn't installed dpkg: warning: ignoring request to remove poa which isn't installed dpkg: warning: ignoring request to remove libsoap-lite-perl which isn't installed dpkg: warning: ignoring request to remove libio-socket-ssl-perl which isn't installed Removing libgcrypt11:amd64 (1.5.0-5+deb7u4) ... Purging configuration files for libgcrypt11:amd64 (1.5.0-5+deb7u4) ... dpkg: warning: ignoring request to remove libfont-afm-perl which isn't installed dpkg: warning: ignoring request to remove libsub-install-perl which isn't installed dpkg: warning: ignoring request to remove hmmer which isn't installed Removing libmagic1:amd64 (1:5.22+15-2+deb8u3) ... Purging configuration files for libmagic1:amd64 (1:5.22+15-2+deb8u3) ... dpkg: warning: ignoring request to remove mustang which isn't installed Removing ruby1.9.1 (1.9.3.194-8.1+deb7u5) ... Purging configuration files for ruby1.9.1 (1.9.3.194-8.1+deb7u5) ... dpkg: warning: ignoring request to remove libwww-perl which isn't installed dpkg: warning: ignoring request to remove libpackage-constants-perl which isn't installed Removing libgomp1:amd64 (4.9.2-10) ... Purging configuration files for libgomp1:amd64 (4.9.2-10) ... dpkg: warning: ignoring request to remove libpod-readme-perl which isn't installed dpkg: warning: ignoring request to remove libsub-exporter-perl which isn't installed Removing blast2 (1:2.2.26.20120620-8) ... Purging configuration files for blast2 (1:2.2.26.20120620-8) ... dpkg: warning: ignoring request to remove rubygems-integration which isn't installed Removing libgmp10:amd64 (2:6.0.0+dfsg-6) ... Purging configuration files for libgmp10:amd64 (2:6.0.0+dfsg-6) ... Removing libquadmath0:amd64 (4.9.2-10) ... Purging configuration files for libquadmath0:amd64 (4.9.2-10) ... dpkg: warning: ignoring request to remove libxml-sax-base-perl which isn't installed dpkg: warning: ignoring request to remove libio-sessiondata-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-format-perl which isn't installed dpkg: warning: ignoring request to remove mafft which isn't installed dpkg: warning: ignoring request to remove libossp-uuid-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-message-perl which isn't installed dpkg: warning: ignoring request to remove libcrypt-ssleay-perl which isn't installed Removing python2.7 (2.7.9-2+deb8u1) ... Purging configuration files for python2.7 (2.7.9-2+deb8u1) ... Removing libxml-sax-perl (0.99+dfsg-2) ... Purging configuration files for libxml-sax-perl (0.99+dfsg-2) ... Removing libgnutls-deb0-28:amd64 (3.3.8-6+deb8u7) ... Purging configuration files for libgnutls-deb0-28:amd64 (3.3.8-6+deb8u7) ... dpkg: warning: ignoring request to remove libcgi-fast-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-form-perl which isn't installed dpkg: warning: ignoring request to remove probcons which isn't installed dpkg: warning: ignoring request to remove libxml-parser-perl which isn't installed dpkg: warning: ignoring request to remove dialign-tx-data which isn't installed dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove libclass-inspector-perl which isn't installed Removing libruby2.1:amd64 (2.1.5-2+deb8u3) ... Purging configuration files for libruby2.1:amd64 (2.1.5-2+deb8u3) ... Removing ncbi-data (6.1.20120620-8) ... Purging configuration files for ncbi-data (6.1.20120620-8) ... dpkg: warning: ignoring request to remove libregexp-common-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tagset-perl which isn't installed dpkg: warning: ignoring request to remove libencode-locale-perl which isn't installed dpkg: warning: ignoring request to remove libxmlrpc-lite-perl which isn't installed dpkg: warning: ignoring request to remove t-coffee which isn't installed dpkg: warning: ignoring request to remove libpython-stdlib which isn't installed dpkg: warning: ignoring request to remove libdata-section-perl which isn't installed dpkg: warning: ignoring request to remove libxml-simple-perl which isn't installed dpkg: warning: ignoring request to remove libconvert-binhex-perl which isn't installed Removing libossp-uuid16:amd64 (1.6.2-1.5+b1) ... Purging configuration files for libossp-uuid16:amd64 (1.6.2-1.5+b1) ... Removing libtasn1-3:amd64 (2.13-2+deb7u2) ... Purging configuration files for libtasn1-3:amd64 (2.13-2+deb7u2) ... dpkg: warning: ignoring request to remove libcgi-pm-perl which isn't installed Removing mime-support (3.58) ... Purging configuration files for mime-support (3.58) ... dpkg: warning: ignoring request to remove prank which isn't installed dpkg: warning: ignoring request to remove libclass-isa-perl which isn't installed Removing libatm1:amd64 (1:2.5.1-1.5) ... Purging configuration files for libatm1:amd64 (1:2.5.1-1.5) ... dpkg: warning: ignoring request to remove libhttp-negotiate-perl which isn't installed dpkg: warning: ignoring request to remove libterm-ui-perl which isn't installed dpkg: warning: ignoring request to remove perl which isn't installed Removing libsqlite3-0:amd64 (3.8.7.1-1+deb8u2) ... Purging configuration files for libsqlite3-0:amd64 (3.8.7.1-1+deb8u2) ... dpkg: warning: ignoring request to remove libhttp-daemon-perl which isn't installed dpkg: warning: ignoring request to remove libio-socket-ip-perl which isn't installed dpkg: warning: ignoring request to remove ruby2.1 which isn't installed Removing netbase (5.3) ... Purging configuration files for netbase (5.3) ... Removing libpod-latex-perl (0.61-1) ... Purging configuration files for libpod-latex-perl (0.61-1) ... Removing libdb5.1:amd64 (5.1.29-5) ... Purging configuration files for libdb5.1:amd64 (5.1.29-5) ... Removing libtasn1-6:amd64 (4.2-3+deb8u3) ... Purging configuration files for libtasn1-6:amd64 (4.2-3+deb8u3) ... Removing libruby1.9.1 (1.9.3.194-8.1+deb7u5) ... Purging configuration files for libruby1.9.1 (1.9.3.194-8.1+deb7u5) ... dpkg: warning: ignoring request to remove libhttp-cookies-perl which isn't installed dpkg: warning: ignoring request to remove libfcgi-perl which isn't installed dpkg: warning: ignoring request to remove libauthen-sasl-perl which isn't installed dpkg: warning: ignoring request to remove libnet-smtp-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libmodule-pluggable-perl which isn't installed dpkg: warning: ignoring request to remove libtask-weaken-perl which isn't installed dpkg: warning: ignoring request to remove ruby which isn't installed dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed dpkg: warning: ignoring request to remove liblwp-mediatypes-perl which isn't installed Removing clustalw (2.1+lgpl-4) ... Purging configuration files for clustalw (2.1+lgpl-4) ... Removing libncbi6:amd64 (6.1.20120620-8) ... Purging configuration files for libncbi6:amd64 (6.1.20120620-8) ... Removing kalign (1:2.03+20110620-2) ... Purging configuration files for kalign (1:2.03+20110620-2) ... Removing libffi6:amd64 (3.1-2+deb8u1) ... Purging configuration files for libffi6:amd64 (3.1-2+deb8u1) ... dpkg: warning: ignoring request to remove libwww-robotrules-perl which isn't installed Removing libisccfg-export90 (1:9.9.5.dfsg-9+deb8u14) ... Purging configuration files for libisccfg-export90 (1:9.9.5.dfsg-9+deb8u14) ... Removing libdns-export100 (1:9.9.5.dfsg-9+deb8u14) ... Purging configuration files for libdns-export100 (1:9.9.5.dfsg-9+deb8u14) ... dpkg: warning: ignoring request to remove lynx which isn't installed dpkg: warning: ignoring request to remove libarchive-extract-perl which isn't installed dpkg: warning: ignoring request to remove clustalo which isn't installed dpkg: warning: ignoring request to remove rename which isn't installed Removing ifupdown (0.7.53.1) ... Purging configuration files for ifupdown (0.7.53.1) ... Removing openssl (1.0.1t-1+deb8u7) ... Purging configuration files for openssl (1.0.1t-1+deb8u7) ... Removing libffi5:amd64 (3.0.10-3) ... Purging configuration files for libffi5:amd64 (3.0.10-3) ... Removing libpython2.7-minimal:amd64 (2.7.9-2+deb8u1) ... Purging configuration files for libpython2.7-minimal:amd64 (2.7.9-2+deb8u1) ... dpkg: warning: ignoring request to remove file which isn't installed dpkg: warning: ignoring request to remove proda which isn't installed Removing libgfortran3:amd64 (4.9.2-10) ... Purging configuration files for libgfortran3:amd64 (4.9.2-10) ... Removing libxtables10 (1.4.21-2+b1) ... Purging configuration files for libxtables10 (1.4.21-2+b1) ... dpkg: warning: ignoring request to remove libdata-optlist-perl which isn't installed dpkg: warning: ignoring request to remove libsocket-perl which isn't installed dpkg: warning: ignoring request to remove libtimedate-perl which isn't installed Removing libyaml-0-2:amd64 (0.1.6-3) ... Purging configuration files for libyaml-0-2:amd64 (0.1.6-3) ... dpkg: warning: ignoring request to remove libmodule-signature-perl which isn't installed dpkg: warning: ignoring request to remove libnet-http-perl which isn't installed dpkg: warning: ignoring request to remove liburi-perl which isn't installed dpkg: warning: ignoring request to remove tm-align which isn't installed Removing perl-modules (5.20.2-3+deb8u9) ... Purging configuration files for perl-modules (5.20.2-3+deb8u9) ... Removing libirs-export91 (1:9.9.5.dfsg-9+deb8u14) ... Purging configuration files for libirs-export91 (1:9.9.5.dfsg-9+deb8u14) ... dpkg: warning: ignoring request to remove liblwp-protocol-https-perl which isn't installed Removing libidn11:amd64 (1.29-1+deb8u2) ... Purging configuration files for libidn11:amd64 (1.29-1+deb8u2) ... Removing javascript-common (11) ... Purging configuration files for javascript-common (11) ... dpkg: warning: ignoring request to remove muscle which isn't installed dpkg: warning: ignoring request to remove libhtml-tree-perl which isn't installed dpkg: warning: ignoring request to remove libswitch-perl which isn't installed Removing isc-dhcp-client (4.3.1-6+deb8u2) ... Purging configuration files for isc-dhcp-client (4.3.1-6+deb8u2) ... dpkg: warning: ignoring request to remove libhttp-date-perl which isn't installed Removing python2.7-minimal (2.7.9-2+deb8u1) ... Purging configuration files for python2.7-minimal (2.7.9-2+deb8u1) ... dpkg: warning: ignoring request to remove amap-align which isn't installed Removing iproute2 (3.16.0-2) ... Purging configuration files for iproute2 (3.16.0-2) ... Removing libhogweed2:amd64 (2.7.1-5+deb8u2) ... Purging configuration files for libhogweed2:amd64 (2.7.1-5+deb8u2) ... dpkg: warning: ignoring request to remove libparams-util-perl which isn't installed 2m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--purge', 'libnet-ssleay-perl', 'libxml-sax-expat-perl', 'libmime-tools-perl', 'iproute', 'libmailtools-perl', 'isc-dhcp-common', 'libjs-jquery', 'liblog-message-perl', 'lynx-cur', 'libargtable2-0', 'libmodule-build-perl', 'libssl1.0.0:amd64', 'libgdbm3:amd64', 'libnettle4:amd64', 'libclass-c3-perl', 'libmro-compat-perl', 'libclass-c3-xs-perl', 'sim4', 'python', 'libio-html-perl', 'libalgorithm-c3-perl', 'libsoftware-license-perl', 'libtext-template-perl', 'libtext-soundex-perl', 'ca-certificates', 'libfile-listing-perl', 'libp11-kit0:amd64', 'libbsd0:amd64', 'libio-stringy-perl', 'libpython2.7-stdlib:amd64', 'libxml-namespacesupport-perl', 'libisc-export95', 'libgnutls26:amd64', 'libcpan-meta-perl', 'liblog-message-simple-perl', 'dialign-tx', 'poa', 'libsoap-lite-perl', 'libio-socket-ssl-perl', 'libgcrypt11:amd64', 'libfont-afm-perl', 'libsub-install-perl', 'hmmer', 'libmagic1:amd64', 'mustang', 'ruby1.9.1', 'libwww-perl', 'libpackage-constants-perl', 'libgomp1:amd64', 'libpod-readme-perl', 'libsub-exporter-perl', 'blast2', 'rubygems-integration', 'libgmp10:amd64', 'libquadmath0:amd64', 'libxml-sax-base-perl', 'libio-sessiondata-perl', 'libhtml-format-perl', 'mafft', 'libossp-uuid-perl', 'libhtml-parser-perl', 'libhttp-message-perl', 'libcrypt-ssleay-perl', 'python2.7', 'libxml-sax-perl', 'libgnutls-deb0-28:amd64', 'libcgi-fast-perl', 'libhtml-form-perl', 'probcons', 'libxml-parser-perl', 'dialign-tx-data', 'python-minimal', 'libclass-inspector-perl', 'libruby2.1:amd64', 'ncbi-data', 'libregexp-common-perl', 'libhtml-tagset-perl', 'libencode-locale-perl', 'libxmlrpc-lite-perl', 't-coffee', 'libpython-stdlib:amd64', 'libdata-section-perl', 'libxml-simple-perl', 'libconvert-binhex-perl', 'libossp-uuid16:amd64', 'libtasn1-3:amd64', 'libcgi-pm-perl', 'mime-support', 'prank', 'libclass-isa-perl', 'libatm1:amd64', 'libhttp-negotiate-perl', 'libterm-ui-perl', 'perl', 'libsqlite3-0:amd64', 'libhttp-daemon-perl', 'libio-socket-ip-perl', 'ruby2.1', 'netbase', 'libpod-latex-perl', 'libdb5.1:amd64', 'libtasn1-6:amd64', 'libruby1.9.1', 'libhttp-cookies-perl', 'libfcgi-perl', 'libauthen-sasl-perl', 'libnet-smtp-ssl-perl', 'libmodule-pluggable-perl', 'libtask-weaken-perl', 'ruby', 'ncbi-blast+', 'liblwp-mediatypes-perl', 'clustalw', 'libncbi6:amd64', 'kalign', 'libffi6:amd64', 'libwww-robotrules-perl', 'libisccfg-export90', 'libdns-export100', 'lynx', 'libarchive-extract-perl', 'clustalo', 'rename', 'ifupdown', 'openssl', 'libffi5:amd64', 'libpython2.7-minimal:amd64', 'file', 'proda', 'libgfortran3:amd64', 'libxtables10', 'libdata-optlist-perl', 'libsocket-perl', 'libtimedate-perl', 'libyaml-0-2:amd64', 'libmodule-signature-perl', 'libnet-http-perl', 'liburi-perl', 'tm-align', 'perl-modules', 'libirs-export91', 'liblwp-protocol-https-perl', 'libidn11:amd64', 'javascript-common', 'muscle', 'libhtml-tree-perl', 'libswitch-perl', 'isc-dhcp-client', 'libhttp-date-perl', 'python2.7-minimal', 'amap-align', 'iproute2', 'libhogweed2:amd64', 'libparams-util-perl'] 2m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--purge', 'ruby-bio'] 2m10.8s DUMP: dpkg: warning: ignoring request to remove ruby-bio which isn't installed 2m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--purge', 'ruby-bio'] 2m10.8s INFO: Running scripts post_purge 2m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_purge_exceptions'] 2m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_purge_exceptions'] 2m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--purge', '--pending'] 2m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--purge', '--pending'] 2m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--remove', '--pending'] 2m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg', '--remove', '--pending'] 2m10.8s INFO: Running scripts post_test 2m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_test_exceptions'] 2m10.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'tmp/scripts/post_test_exceptions'] 2m10.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 2m12.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 2m12.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg-divert', '--list'] 2m12.4s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 2m12.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'dpkg-divert', '--list'] 2m12.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'clean'] 2m12.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj', 'apt-get', 'clean'] 2m12.4s DEBUG: Recording chroot state 2m17.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/run/shm'] 2m17.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/run/shm'] 2m17.9s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/console'] 2m18.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/console'] 2m18.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/ptmx'] 2m18.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/ptmx'] 2m18.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/pts'] 2m18.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/dev/pts'] 2m18.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/proc'] 2m18.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj/proc'] 2m18.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 2m18.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpgmh0Dj'] 2m18.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpgmh0Dj 2m18.4s INFO: PASS: Upgrading between Debian distributions. 2m18.4s INFO: PASS: All tests. 2m18.4s INFO: piuparts run ends. ret=0 End: 2018-06-06 13:42:52 UTC