Start: 2023-01-05 01:03:36 GMT [jessie] Package: science-biology Source: debian-science Version: 1.4 Installed-Size: 62 Maintainer: Debian Science Team Architecture: all Depends: science-tasks (= 1.4), science-config (= 1.4) Recommends: bauble, critterding, med-bio Suggests: avida-base, genesis, med-bio-dev Description: Debian Science Biology packages Homepage: http://wiki.debian.org/DebianScience/ Description-md5: 59633f821572a37f2f07d2231a8d2300 Tag: field::biology, role::metapackage, suite::debian Section: science Priority: extra Filename: pool/main/d/debian-science/science-biology_1.4_all.deb Size: 11496 MD5sum: 934a233a64acd884aa51c4d37c29c5cb SHA1: eeb072018c533a88563320bb5694f8ab62c44672 SHA256: 3872561aaf7cabd3db6b1a2aa54fd109c702b61f53086099f0f00345700e5d3d [stretch] Package: science-biology Source: debian-science Version: 1.7 Installed-Size: 37 Maintainer: Debian Science Team Architecture: all Depends: science-tasks (= 1.7), science-config (= 1.7) Recommends: bauble, critterding, med-bio Suggests: avida-base, genesis, med-bio-dev Description: Debian Science Biology packages Homepage: http://wiki.debian.org/DebianScience/ Description-md5: 59633f821572a37f2f07d2231a8d2300 Tag: field::biology, role::metapackage, suite::debian Section: science Priority: extra Filename: pool/main/d/debian-science/science-biology_1.7_all.deb Size: 16416 MD5sum: 00327a3b7447eb2e28e3e6f0eefae35b SHA256: 7675e9023e8d241f3df72bcb4fa7cabb2b6045594a2cdf341e88c13b54f54b1c Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --skip-logrotatefiles-test --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz -d jessie -d stretch -B /srv/piuparts.debian.org/slave/refchroot/jessie2stretch-rcmd/reference-chroot-metadata.dat --apt science-biology=1.7 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --skip-logrotatefiles-test --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz -d jessie -d stretch -B /srv/piuparts.debian.org/slave/refchroot/jessie2stretch-rcmd/reference-chroot-metadata.dat --apt science-biology=1.7 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-20-amd64 #1 SMP Debian 5.10.158-2 (2022-12-13) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpjjuap_13 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpjjuap_13 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz'] 0m1.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/jessie_amd64.tar.gz'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/proc'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/proc'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/pts'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/pts'] 0m1.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/ptmx'] 0m1.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/ptmx'] 0m1.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/console'] 0m1.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/console'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/shm'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/shm'] 0m1.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ jessie main 0m1.4s DEBUG: Created policy-rc.d and chmodded it. 0m1.4s DEBUG: Created resolv.conf. 0m1.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpjjuap_13/tmp/scripts/ 0m1.4s INFO: Running scripts post_chroot_unpack 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-get', 'update'] 0m3.4s DUMP: Ign http://deb.debian.org jessie InRelease Hit http://deb.debian.org jessie Release.gpg Hit http://deb.debian.org jessie Release Ign http://deb.debian.org jessie Release Hit http://deb.debian.org jessie/main Translation-en Hit http://deb.debian.org jessie/main amd64 Packages Reading package lists... W: GPG error: http://deb.debian.org jessie Release: The following signatures were invalid: KEYEXPIRED 1668891673 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-get', 'update'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DUMP: Reading package lists... Building dependency tree... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.8s DUMP: c58dd1ad19dd97acb5ff8b7cd65de431 - 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.8s INFO: Running scripts post_setup 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_dummy_users'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_dummy_users'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_forbid_home'] 0m4.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_forbid_home'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.3s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_minimize'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_minimize'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_zz_backports'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/post_setup_zz_backports'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.4s DUMP: install ok installed acl acl 2.2.52-2 install ok installed adduser adduser 3.113+nmu3 install ok installed apt apt 1.0.9.8.4 install ok installed base-files base-files 8+deb8u11 install ok installed base-passwd base-passwd 3.5.37 install ok installed bash bash 4.3-11+deb8u1 install ok installed bsdutils bsdutils 1:2.25.2-6 install ok installed coreutils coreutils 8.23-4 install ok installed dash dash 0.5.7-4+b1 install ok installed debconf debconf 1.5.56+deb8u1 install ok installed debconf-i18n debconf-i18n 1.5.56+deb8u1 install ok installed debian-archive-keyring debian-archive-keyring 2017.5~deb8u1 install ok installed debianutils debianutils 4.4+b1 install ok installed diffutils diffutils 1:3.3-1+b1 install ok installed dmsetup dmsetup 2:1.02.90-2.2+deb8u1 install ok installed dpkg dpkg 1.17.27 install ok installed e2fslibs:amd64 e2fslibs 1.42.12-2+b1 install ok installed e2fsprogs e2fsprogs 1.42.12-2+b1 install ok installed findutils findutils 4.4.2-9+b1 install ok installed gcc-4.9-base:amd64 gcc-4.9-base 4.9.2-10+deb8u1 install ok installed gnupg gnupg 1.4.18-7+deb8u5 install ok installed gpgv gpgv 1.4.18-7+deb8u5 install ok installed grep grep 2.20-4.1 install ok installed gzip gzip 1.6-4 install ok installed hostname hostname 3.15 install ok installed init init 1.22 install ok installed initscripts initscripts 2.88dsf-59 install ok installed insserv insserv 1.14.0-5 install ok installed libacl1:amd64 libacl1 2.2.52-2 install ok installed libapt-pkg4.12:amd64 libapt-pkg4.12 1.0.9.8.4 install ok installed libattr1:amd64 libattr1 1:2.4.47-2 install ok installed libaudit-common libaudit-common 1:2.4-1 install ok installed libaudit1:amd64 libaudit1 1:2.4-1+b1 install ok installed libblkid1:amd64 libblkid1 2.25.2-6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-7+b3 install ok installed libc-bin libc-bin 2.19-18+deb8u10 install ok installed libc6:amd64 libc6 2.19-18+deb8u10 install ok installed libcap2:amd64 libcap2 1:2.24-8 install ok installed libcap2-bin libcap2-bin 1:2.24-8 install ok installed libcomerr2:amd64 libcomerr2 1.42.12-2+b1 install ok installed libcryptsetup4:amd64 libcryptsetup4 2:1.6.6-5 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-9+deb8u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.192 install ok installed libdevmapper1.02.1:amd64 libdevmapper1.02.1 2:1.02.90-2.2+deb8u1 install ok installed libgcc1:amd64 libgcc1 1:4.9.2-10+deb8u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.6.3-2+deb8u4 install ok installed libgpg-error0:amd64 libgpg-error0 1.17-3 install ok installed libkmod2:amd64 libkmod2 18-3 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.05-8+b1 install ok installed liblzma5:amd64 liblzma5 5.1.1alpha+20120614-2+b3 install ok installed libmount1:amd64 libmount1 2.25.2-6 install ok installed libncurses5:amd64 libncurses5 5.9+20140913-1+deb8u3 install ok installed libncursesw5:amd64 libncursesw5 5.9+20140913-1+deb8u3 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.1+deb8u2+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.1+deb8u2+b1 install ok installed libpam-runtime libpam-runtime 1.1.8-3.1+deb8u2 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.1+deb8u2+b1 install ok installed libpcre3:amd64 libpcre3 2:8.35-3.3+deb8u4 install ok installed libprocps3:amd64 libprocps3 2:3.3.9-9+deb8u1 install ok installed libreadline6:amd64 libreadline6 6.3-8+b3 install ok installed libselinux1:amd64 libselinux1 2.3-2 install ok installed libsemanage-common libsemanage-common 2.3-1 install ok installed libsemanage1:amd64 libsemanage1 2.3-1+b1 install ok installed libsepol1:amd64 libsepol1 2.3-2 install ok installed libslang2:amd64 libslang2 2.3.0-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.25.2-6 install ok installed libss2:amd64 libss2 1.42.12-2+b1 install ok installed libstdc++6:amd64 libstdc++6 4.9.2-10+deb8u1 install ok installed libsystemd0:amd64 libsystemd0 215-17+deb8u7 install ok installed libtext-charwidth-perl libtext-charwidth-perl 0.04-7+b3 install ok installed libtext-iconv-perl libtext-iconv-perl 1.7-5+b2 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-7 install ok installed libtinfo5:amd64 libtinfo5 5.9+20140913-1+deb8u3 install ok installed libudev1:amd64 libudev1 215-17+deb8u7 install ok installed libusb-0.1-4:amd64 libusb-0.1-4 2:0.1.12-25 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-3+b2 install ok installed libuuid1:amd64 libuuid1 2.25.2-6 install ok installed login login 1:4.2-3+deb8u4 install ok installed lsb-base lsb-base 4.1+Debian13+nmu1 install ok installed mawk mawk 1.3.3-17 install ok installed mount mount 2.25.2-6 install ok installed multiarch-support multiarch-support 2.19-18+deb8u10 install ok installed ncurses-base ncurses-base 5.9+20140913-1+deb8u3 install ok installed ncurses-bin ncurses-bin 5.9+20140913-1+deb8u3 install ok installed passwd passwd 1:4.2-3+deb8u4 install ok installed perl-base perl-base 5.20.2-3+deb8u11 install ok installed procps procps 2:3.3.9-9+deb8u1 install ok installed readline-common readline-common 6.3-8 install ok installed sed sed 4.2.2-4+deb8u1 install ok installed sensible-utils sensible-utils 0.0.9+deb8u1 install ok installed startpar startpar 0.59-3 install ok installed systemd systemd 215-17+deb8u7 install ok installed systemd-sysv systemd-sysv 215-17+deb8u7 install ok installed sysv-rc sysv-rc 2.88dsf-59 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59 install ok installed tar tar 1.27.1-2+deb8u1 install ok installed tzdata tzdata 2018e-0+deb8u1 install ok installed udev udev 215-17+deb8u7 install ok installed util-linux util-linux 2.25.2-6 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-2+b1 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.4s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/jessie2stretch-rcmd/reference-chroot-metadata.dat 0m4.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjjuap_13'] 0m4.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjjuap_13'] 0m4.8s INFO: Running scripts is_testable 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/is_testable_uninstallable'] 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/is_testable_uninstallable'] 0m4.9s INFO: Running scripts pre_test 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_test_exceptions'] 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_test_exceptions'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_test_root_password'] 0m4.9s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_test_root_password'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-cache', 'show', '--no-all-versions', 'science-biology'] 0m4.9s DUMP: Package: science-biology Source: debian-science Version: 1.4 Installed-Size: 62 Maintainer: Debian Science Team Architecture: all Depends: science-tasks (= 1.4), science-config (= 1.4) Recommends: bauble, critterding, med-bio Suggests: avida-base, genesis, med-bio-dev Description-en: Debian Science Biology packages This metapackage will install Debian Science packages related to Biology. You might also be interested in the field::biology debtag. . This metapackage makes use of the packages med-bio and med-bio-dev (for development of biological applications) which are maintained by Debian Med - another Debian Pure Blend. If you are a biologist you are most probably interested in the Debian Med project which deals with biology and medicine in much more detail then the more general Debian Science. Description-md5: 59633f821572a37f2f07d2231a8d2300 Homepage: http://wiki.debian.org/DebianScience/ Tag: field::biology, role::metapackage, suite::debian Section: science Priority: extra Filename: pool/main/d/debian-science/science-biology_1.4_all.deb Size: 11496 MD5sum: 934a233a64acd884aa51c4d37c29c5cb SHA1: eeb072018c533a88563320bb5694f8ab62c44672 SHA256: 3872561aaf7cabd3db6b1a2aa54fd109c702b61f53086099f0f00345700e5d3d 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-cache', 'show', '--no-all-versions', 'science-biology'] 0m4.9s INFO: apt-cache knows about the following packages: science-biology 0m4.9s INFO: Running scripts pre_install 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_database-server'] 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_database-server'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_exceptions'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_exceptions'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_extras'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_extras'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-cache', 'policy'] 0m5.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian/ jessie/main Translation-en 500 http://deb.debian.org/debian/ jessie/main amd64 Packages release v=8.11,o=Debian,a=oldoldstable,n=jessie,l=Debian,c=main origin deb.debian.org Pinned packages: 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-cache', 'policy'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-cache', 'policy', 'science-biology'] 0m5.1s DUMP: science-biology: Installed: (none) Candidate: 1.4 Version table: 1.4 0 500 http://deb.debian.org/debian/ jessie/main amd64 Packages 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-cache', 'policy', 'science-biology'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-get', '-y', 'install', 'science-biology'] 0m6.1s DUMP: Reading package lists... Building dependency tree... The following extra packages will be installed: abacas acedb-other acedb-other-belvu acedb-other-dotter adun.app adwaita-icon-theme aevol aglfn alien-hunter altree amap-align ampliconnoise anfo ant ant-contrib ant-optional apache2 apache2-bin apache2-data apache2-utils apbs aragorn arden aspell aspell-en at-spi2-core autodock autodock-vina autogrid autopoint autotools-dev ballview bamtools bauble bc bedtools binfmt-support binutils biomaj bioperl bioperl-run biosquid blast2 blends-common blt bowtie bowtie2 boxshade bsdmainutils build-essential bwa bzip2 bzip2-doc ca-certificates ca-certificates-java cassiopee cd-hit cdbfasta cdbs chimeraslayer circos circos-tools clearcut clonalframe clustalo clustalw clustalx colord colord-data concavity conservation-code cpp cpp-4.9 critterding curl cython dbus dconf-gsettings-backend dconf-service debhelper default-jre default-jre-headless dh-python dialign dialign-tx dialign-tx-data dictionaries-common discosnp disulfinder disulfinder-data dmidecode dnaclust docutils-common docutils-doc dpkg-dev dssp dvipng edtsurf emacsen-common embassy-domainatrix embassy-domalign embassy-domsearch emboss emboss-data emboss-lib exonerate fakeroot fastaq fastdnaml fastjar fastlink fastqc fasttree fastx-toolkit ffindex figtree file filo fitgcp flexbar fontconfig fontconfig-config fonts-cabin fonts-circos-symbols fonts-cmu fonts-comfortaa fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu fonts-dejavu-core fonts-dejavu-extra fonts-droid fonts-ebgaramond fonts-ebgaramond-extra fonts-font-awesome fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-inconsolata fonts-junicode fonts-lato fonts-liberation fonts-linuxlibertine fonts-lmodern fonts-lobster fonts-lobstertwo fonts-lyx fonts-oflb-asana-math fonts-sil-gentium fonts-sil-gentium-basic fonts-stix fonts-texgyre freecontact freeglut3 g++ g++-4.9 gamgi garlic gasic gawk gbrowse gcc gcc-4.9 gdpc genometools genometools-common gentle gettext gettext-base gff2aplot gff2ps gfortran gfortran-4.9 ghostscript giira glam2 glib-networking glib-networking-common glib-networking-services glpk-utils gnuplot gnuplot-data gnuplot-qt gnuplot-tex gnustep-back-common gnustep-back0.24 gnustep-back0.24-cairo gnustep-base-common gnustep-base-runtime gnustep-common gnustep-gui-common gnustep-gui-runtime graphviz grinder groff-base gromacs gromacs-data gsettings-desktop-schemas gsfonts gstreamer1.0-plugins-base hhsuite hhsuite-data hicolor-icon-theme hmmer hmmer2 icedtea-netx-common idba ifupdown imagemagick imagemagick-6.q16 imagemagick-common infernal init-system-helpers intltool-debian ipig iproute2 ipython isc-dhcp-client isc-dhcp-common iso-codes jalview jarwrapper java-common java-wrappers javahelp2 javascript-common jellyfish jmol jmol-applet junit junit4 kalign king kissplice krb5-locales ksh laptop-detect last-align libace-perl libai-fann-perl libalgorithm-c3-perl libalgorithm-diff-perl libalgorithm-diff-xs-perl libalgorithm-merge-perl libalgorithm-munkres-perl libamd2.3.1 libanfo0 libanyevent-cachedns-perl libanyevent-http-perl libanyevent-perl libao-common libao4 libapache-dbi-perl libapache-mime4j-java libapache-pom-java libapache2-mod-perl2 libapache2-reload-perl libapr1 libaprutil1 libaprutil1-dbd-sqlite3 libaprutil1-ldap libarchive-extract-perl libarchive13 libargtable2-0 libarray-compare-perl libart-2.0-2 libasan1 libasound2 libasound2-data libaspell15 libasprintf-dev libasprintf0c2 libasync-interrupt-perl libasyncns0 libatk-bridge2.0-0 libatk-wrapper-java libatk-wrapper-java-jni libatk1.0-0 libatk1.0-data libatlas3-base libatm1 libatomic1 libatspi2.0-0 libaudio2 libauthen-sasl-perl libavahi-client3 libavahi-common-data libavahi-common3 libaxis-java libb-hooks-op-check-perl libball1.4 libball1.4-data libballview1.4 libbambamc0 libbamtools2.3.0 libbareword-filehandles-perl libbcmail-java libbcpkix-java libbcprov-java libbio-asn1-entrezgene-perl libbio-graphics-perl libbio-perl-perl libbio-perl-run-perl libbio-scf-perl libbiojava-java libbiojava1.7-java libbit-vector-perl libblas-common libblas-dev libblas3 libboost-chrono1.55.0 libboost-date-time1.55.0 libboost-filesystem1.55.0 libboost-iostreams1.55.0 libboost-math1.55.0 libboost-mpi1.55.0 libboost-program-options1.55.0 libboost-random1.55.0 libboost-regex1.55.0 libboost-serialization1.55.0 libboost-system1.55.0 libboost-thread1.55.0 libboost-timer1.55.0 libbsd-resource-perl libbsd0 libbytecode-java libbz2-dev libc-dev-bin libc6-dev libcaca0 libcache-cache-perl libcairo-gobject2 libcairo2 libcanberra-gtk3-0 libcanberra-gtk3-module libcanberra0 libcap-ng0 libcarp-always-perl libcarp-clan-perl libcassie1 libcastor-core-java libcastor-xml-java libcbf0 libcdparanoia0 libcdt5 libcfitsio2 libcgi-fast-perl libcgi-pm-perl libcgi-session-perl libcgraph6 libcilkrts5 libclass-c3-perl libclass-c3-xs-perl libclass-inspector-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcloog-isl4 libcneartree5 libcofoja-java libcolamd2.8.0 libcolord2 libcolorhug2 libcommon-sense-perl libcommons-cli-java libcommons-codec-java libcommons-collections3-java libcommons-compress-java libcommons-dbcp-java libcommons-discovery-java libcommons-httpclient-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-math3-java libcommons-net1-java libcommons-net2-java libcommons-parent-java libcommons-pool-java libconfig-general-perl libconfig-inifiles-perl libconvert-binary-c-perl libconvert-binhex-perl libcpan-meta-perl libcqrlib2 libcr0 libcroco3 libcrypt-rc4-perl libcrypt-ssleay-perl libcups2 libcupsfilters1 libcupsimage2 libcurl3 libcurl3-gnutls libcvector2 libdata-dumper-simple-perl libdata-optlist-perl libdata-section-perl libdata-stag-perl libdate-calc-perl libdate-calc-xs-perl libdate-manip-perl libdatrie1 libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl libdbus-1-3 libdconf1 libdevel-caller-perl libdevel-globaldestruction-perl libdevel-lexalias-perl libdevel-symdump-perl libdigest-perl-md5-perl libdirectfb-1.2-9 libdjvulibre-text libdjvulibre21 libdns-export100 libdom4j-java libdpkg-perl libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libelfg0 libelk0 libencode-locale-perl liberror-perl libev-perl libexif12 libexpat1 libexpat1-dev libexporter-tiny-perl libfakeroot libfann2 libfcgi-perl libffi6 libffindex0 libfftw3-double3 libfftw3-single3 libfile-basedir-perl libfile-chdir-perl libfile-copy-recursive-perl libfile-desktopentry-perl libfile-fcntllock-perl libfile-homedir-perl libfile-listing-perl libfile-mimeinfo-perl libfile-slurp-tiny-perl libfile-which-perl libflac8 libflite1 libfltk-images1.3 libfltk1.3 libfont-afm-perl libfont-ttf-perl libfontconfig1 libfontenc1 libfreecontact0 libfreehep-export-java libfreehep-graphics2d-java libfreehep-graphicsio-emf-java libfreehep-graphicsio-java libfreehep-graphicsio-pdf-java libfreehep-graphicsio-ps-java libfreehep-graphicsio-svg-java libfreehep-graphicsio-swf-java libfreehep-graphicsio-tests-java libfreehep-io-java libfreehep-swing-java libfreehep-util-java libfreehep-xml-java libfreetype6 libfreezethaw-perl libftgl2 libg20 libgcc-4.9-dev libgd-graph-perl libgd-perl libgd-svg-perl libgd-text-perl libgd3 libgdbm3 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgenometools0 libgetopt-euclid-perl libgetopt-simple-perl libgettextpo-dev libgettextpo0 libgflags2 libgfortran-4.9-dev libgfortran3 libgif4 libgl1-mesa-dri libgl1-mesa-glx libglade2-0 libglapi-mesa libglew1.10 libglib2.0-0 libglib2.0-data libglpk-java libglpk36 libglu1-mesa libgmp-dev libgmp10 libgmpxx4ldbl libgnuinet-java libgnumail-java libgnustep-base1.24 libgnustep-gui0.24 libgnutls-deb0-28 libgo-perl libgomp1 libgoogle-glog0 libgphoto2-6 libgphoto2-l10n libgphoto2-port10 libgraph-perl libgraphics-colornames-perl libgraphics-colorobject-perl libgraphite2-3 libgraphviz-perl libgs9 libgs9-common libgsl0ldbl libgssapi-krb5-2 libgstreamer-plugins-base1.0-0 libgstreamer1.0-0 libgtextutils0 libgtk-3-0 libgtk-3-bin libgtk-3-common libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libgtkglext1 libguard-perl libgudev-1.0-0 libgusb2 libgvc6 libgvpr2 libhamcrest-java libharfbuzz-icu0 libharfbuzz0b libhdf5-8 libheap-perl libhmsbeagle1 libhogweed2 libhpdf-2.2.1 libhsqldb-java libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tableextract-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhttpclient-java libhttpcore-java libhttpmime-java libhwloc-plugins libhwloc5 libibverbs1 libice-dev libice6 libicu52 libidn11 libieee1284-3 libijs-0.35 libilmbase6 libimport-into-perl libindirect-perl libio-all-perl libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libipc-sharelite-perl libirs-export91 libisc-export95 libisccfg-export90 libisl10 libisorelax-java libitext-java libitext5-java libitm1 libjaba-client-java libjam-java libjas-plotter-java libjasper1 libjava-xmlbuilder-java libjaxen-java libjbig0 libjbig2dec0 libjbzip2-java libjcode-pm-perl libjcommon-java libjdom1-java libjebl2-java libjellyfish-2.0-2 libjets3t-java libjgoodies-common-java libjgoodies-forms-java libjmol-java libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery libjs-jquery-ui libjs-prototype libjs-scriptaculous libjs-sphinxdoc libjs-underscore libjsch-java libjson-c2 libjson-glib-1.0-0 libjson-glib-1.0-common libjson-perl libjson-xs-perl libjsoncpp0 libjswingreader-java libjzlib-java libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 liblexical-sealrequirehints-perl liblist-allutils-perl liblist-moreutils-perl libllvm3.5 liblog-message-perl liblog-message-simple-perl liblog4cpp5 liblog4j1.2-java liblqr-1-0 liblsan0 libltdl7 liblua5.1-0 liblwp-mediatypes-perl liblwp-protocol-https-perl liblzma-dev liblzo2-2 libmagic1 libmagickcore-6.q16-2 libmagickcore-6.q16-2-extra libmagickwand-6.q16-2 libmail-java libmail-sendmail-perl libmailtools-perl libmaloc1 libmath-bezier-perl libmath-derivative-perl libmath-random-mt-perl libmath-round-perl libmath-spline-perl libmath-tamuanova-perl libmath-vec-perl libmath-vecstat-perl libmiglayout-java libmime-tools-perl libmldbm-perl libmng1 libmodule-build-perl libmodule-implementation-perl libmodule-pluggable-perl libmodule-runtime-perl libmodule-signature-perl libmoo-perl libmotif-common libmpc3 libmpdec2 libmpfr4 libmro-compat-perl libmsv-java libmultidimensional-perl libmysql-java libmysqlclient18 libnb-org-openide-util-java libnb-org-openide-util-lookup-java libncbi6 libncurses5-dev libncursesw5-dev libnet-dbus-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnetpbm10 libnettle4 libnotify4 libnspr4 libnss3 libnuma1 libobjc4 libogg0 libole-storage-lite-perl libopenexr6 libopenjpeg5 libopenmpi1.6 libopenms1.11 liborc-0.4-0 liboro-java libossp-uuid-perl libossp-uuid16 libp11-kit0 libpackage-constants-perl libpadwalker-perl libpam-systemd libpango-1.0-0 libpango1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpangox-1.0-0 libpangoxft-1.0-0 libpaper-utils libpaper1 libparams-classify-perl libparams-util-perl libparams-validate-perl libparse-recdescent-perl libpathplan4 libpciaccess0 libpcre3-dev libpcrecpp0 libpcsclite1 libperl4-corelibs-perl libperl5.20 libperlio-gzip-perl libpipeline1 libpixman-1-0 libpng12-0 libpng12-dev libpod-coverage-perl libpod-latex-perl libpod-readme-perl libpolkit-agent-1-0 libpolkit-backend-1-0 libpolkit-gobject-1-0 libpoppler-qt4-4 libpoppler46 libpopt0 libpostscript-perl libpotrace0 libpq5 libprotobuf9 libproxy1 libptexenc1 libpth20 libpthread-stubs0-dev libpulse0 libpvm3 libpython-all-dev libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.4-minimal libpython3.4-stdlib libqt4-network libqt4-opengl libqt4-sql libqt4-sql-mysql libqt4-svg libqt4-test libqt4-xml libqt4-xmlpatterns libqtcore4 libqtdbus4 libqtgui4 libqtwebkit4 libquadmath0 libreadline-dev libreadline6-dev libreadonly-perl libregexp-common-perl libregexp-java librelaxng-datatype-java librelion-1.3-1 librest-0.7-0 librg-exception-perl librg-reprof-bundle-perl librg-utils-perl librole-tiny-perl librsvg2-2 librsvg2-common librtmp1 libruby2.1 libsam-java libsane libsane-common libsane-extras libsane-extras-common libsasl2-2 libsasl2-modules libsasl2-modules-db libsaxonb-java libsctp1 libsdl1.2debian libservlet2.5-java libset-intspan-perl libset-scalar-perl libsigsegv2 libsm-dev libsm6 libsndfile1 libsnp-sites1 libsoap-lite-perl libsoftware-license-perl libsort-naturally-perl libsoup-gnome2.4-1 libsoup2.4-1 libspiffy-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsprng2 libsqlite0 libsqlite3-0 libsquizz libssh2-1 libssl1.0.0 libstaden-read1 libstatistics-descriptive-perl libstdc++-4.9-dev libstrictures-perl libstring-approx-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-install-perl libsub-name-perl libsvg-graph-perl libsvg-perl libsvm3 libsynctex1 libsys-hostname-long-perl libtablelayout-java libtamuanova-0.2 libtask-weaken-perl libtasn1-6 libtbb2 libtcl8.5 libtcl8.6 libtcmalloc-minimal4 libtdb1 libterm-readkey-perl libterm-ui-perl libtest-pod-perl libtext-format-perl libtext-soundex-perl libtext-template-perl libthai-data libthai0 libtheora0 libtie-ixhash-perl libtiff5 libtimedate-perl libtinfo-dev libtinyxml2.6.2 libtk8.5 libtk8.6 libtre5 libtree-dagnode-perl libtry-tiny-perl libtsan0 libtxc-dxtn-s2tc0 libtype-tiny-perl libtype-tiny-xs-perl libubsan0 libunicode-map-perl libunistring0 libunwind8 liburi-perl libusb-1.0-0 libutempter0 libv4l-0 libv4lconvert0 libvamsas-client-java libvibrant6b libvisual-0.4-0 libvisual-0.4-plugins libvm-ec2-perl libvorbis0a libvorbisenc2 libvorbisfile3 libvpx1 libvte-common libvte9 libwayland-client0 libwayland-cursor0 libwebp5 libwebpdemux1 libwebpmux1 libwmf0.2-7 libwrap0 libwsdl4j-java libwww-perl libwww-robotrules-perl libwxbase3.0-0 libwxgtk3.0-0 libx11-6 libx11-data libx11-dev libx11-doc libx11-protocol-perl libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxdot4 libxerces-c3.1 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxm4 libxml-checker-perl libxml-commons-external-java libxml-commons-resolver1.1-java libxml-dom-perl libxml-dom-xpath-perl libxml-filter-buffertext-perl libxml-libxml-perl libxml-libxslt-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpath-perl libxml-xpathengine-perl libxml2 libxmlrpc-lite-perl libxmu6 libxmuu1 libxom-java libxpm4 libxpp2-java libxpp3-java libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxt-dev libxt6 libxtables10 libxtst6 libxv1 libxxf86dga1 libxxf86vm1 libyaml-0-2 libyaml-libyaml-perl libyaml-perl libyaml-tiny-perl libzeep3.0 libzzip-0-13 linux-libc-dev littler lksctp-tools lmodern logol-bin loki ltrsift lua-filesystem lua-lpeg lua-md5 lynx lynx-cur macs mafft make man-db manpages manpages-dev mapsembler2 maq maqview massxpert massxpert-data med-bio med-config med-tasks melting menu metastudent metastudent-data metastudent-data-2 microbiomeutil microbiomeutil-data mime-support minia mipe mira-assembler mknfonts.tool mlv-smile mothur mpi-default-bin mrbayes mrs mummer muscle mustang mysql-client mysql-client-5.5 mysql-common nast-ier ncbi-blast+ ncbi-data ncbi-epcr ncbi-seg ncbi-tools-bin ncbi-tools-x11 ncoils neobio netbase netpbm njplot norsnet norsp notification-daemon ocl-icd-libopencl1 openjdk-7-jdk openjdk-7-jre openjdk-7-jre-headless openmpi-bin openmpi-common openms openms-common openssh-client openssl paraclu parsinsert patch pdb2pqr perl perl-doc perl-modules perl-tk perlprimer perm phylip phyml phyutility picard-tools plasmidomics plink po-debconf poa policykit-1 poppler-data populations pp-popularity-contest prank predictnls predictprotein prerex preview-latex-style prime-phylo primer3 proalign probabel probalign probcons proda prodigal profbval profisis profnet-bval profnet-chop profnet-con profnet-isis profnet-md profnet-norsnet profnet-prof profnet-snapfun profphd profphd-net profphd-utils proftmb prosper ps2eps pvm pycorrfit pymol pynast pyqi pyscanfcs python python-all python-all-dev python-ball python-ballview python-biom-format python-biopython python-biopython-doc python-cairo python-chardet python-cogent python-crypto python-dateutil python-decorator python-dev python-docutils python-egenix-mxdatetime python-egenix-mxtools python-gdata python-glade2 python-gmpy python-gobject-2 python-gtk2 python-h5py python-htseq python-imaging python-jinja2 python-lxml python-mako python-markupsafe python-matplotlib python-matplotlib-data python-minimal python-mock python-mpi4py python-mpmath python-multipletau python-mysqldb python-nose python-numpy python-pexpect python-pil python-pkg-resources python-pmw python-pyfits python-pyglet python-pygments python-pyparsing python-pyrex python-pysam python-pysqlite2 python-qcli python-renderpm python-reportlab python-reportlab-accel python-roman python-scipy python-simplegeneric python-sip python-six python-sphinx python-sqlalchemy python-sqlalchemy-ext python-support python-sympy python-tk python-tz python-wxgtk3.0 python-wxversion python-yaml python2.7 python2.7-dev python2.7-minimal python3 python3-minimal python3-nose python3-pkg-resources python3.4 python3.4-minimal qiime qiime-data qtcore4-l10n r-base-core r-base-dev r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biomart r-bioc-biostrings r-bioc-biovizbase r-bioc-bsgenome r-bioc-cummerbund r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-gviz r-bioc-hilbertvis r-bioc-iranges r-bioc-rsamtools r-bioc-rtracklayer r-bioc-shortread r-bioc-variantannotation r-bioc-xvector r-cran-abind r-cran-ape r-cran-base64enc r-cran-batchjobs r-cran-bbmisc r-cran-bitops r-cran-boot r-cran-brew r-cran-checkmate r-cran-chron r-cran-class r-cran-cluster r-cran-codetools r-cran-colorspace r-cran-dbi r-cran-dichromat r-cran-digest r-cran-domc r-cran-doparallel r-cran-evaluate r-cran-fail r-cran-fastcluster r-cran-foreach r-cran-foreign r-cran-formula r-cran-g.data r-cran-genabel r-cran-genabel.data r-cran-getopt r-cran-ggplot2 r-cran-gtable r-cran-hmisc r-cran-hwriter r-cran-iterators r-cran-kernsmooth r-cran-labeling r-cran-lattice r-cran-latticeextra r-cran-mapproj r-cran-maps r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-mgcv r-cran-multicore r-cran-munsell r-cran-nlme r-cran-nnet r-cran-optparse r-cran-permute r-cran-pkgkitten r-cran-plyr r-cran-proto r-cran-qtl r-cran-r.methodss3 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-reshape2 r-cran-rpart r-cran-rsqlite r-cran-scales r-cran-sendmailr r-cran-sp r-cran-spatial r-cran-stringr r-cran-survival r-cran-tcltk2 r-cran-testthat r-cran-vegan r-cran-xml r-doc-html r-other-bio3d r-other-mott-happy.hbrem r-recommended rasmol raster3d rate4site raxml ray readseq relion-bin rename reprof rnahybrid rsync rtax ruby ruby2.1 rubygems-integration saint samtools sane-utils science-config science-tasks seaview seqan-apps seqtk sgml-base shared-mime-info sibsim4 sigma-align sim4 smalt snap snp-sites soapdenovo soapdenovo2 sphinx-common sphinx-doc sqlite3 squizz sra-toolkit sra-toolkit-libs0 ssake ssl-cert staden staden-common staden-io-lib-utils swi-prolog swi-prolog-nox swi-prolog-x t-coffee tabix tasksel tasksel-data tcl tcl8.6 tcllib tcpd tex-common tex-gyre texlive-base texlive-binaries texlive-extra-utils texlive-font-utils texlive-fonts-extra texlive-fonts-extra-doc texlive-fonts-recommended texlive-fonts-recommended-doc texlive-generic-recommended texlive-latex-base texlive-latex-base-doc texlive-latex-extra texlive-latex-extra-doc texlive-latex-recommended texlive-latex-recommended-doc texlive-math-extra texlive-pictures texlive-pictures-doc texlive-pstricks texlive-pstricks-doc theseus tigr-glimmer tipa tk tk-table tk8.6 tk8.6-blt2.5 tklib tm-align tophat topp transtermhp tree-puzzle tree-puzzle-doc treeviewx trimmomatic ttf-adf-accanthis ttf-adf-gillius ttf-adf-universalis ttf-dejavu ttf-dejavu-core ttf-dejavu-extra tzdata-java uc-echo ucf unzip update-inetd vcftools velvet velvetoptimiser vprerex wigeon wise wise-data x11-common x11-utils x11-xserver-utils x11proto-core-dev x11proto-input-dev x11proto-kb-dev xauth xbitmaps xdg-user-dirs xdg-utils xkb-data xml-core xorg-sgml-doctools xsltproc xterm xtrans-dev xz-utils zalign zip zlib1g-dev Suggested packages: altree-examples ant-doc ant-gcj default-jdk java-compiler java-sdk libbcel-java ivy ant-optional-gcj antlr javacc jython libbsf-java libcommons-net-java libjaxp1.3-java libjdepend-java libxalan2-java www-browser apache2-doc apache2-suexec-pristine apache2-suexec-custom aspell-doc spellutils autodocktools binutils-doc mysql-server gmap paml ncbi-rrna-data blends-doc blt-demo bowtie-examples bowtie2-examples xfig wamerican wordlist whois vacation devscripts cpp-doc gcc-4.9-locales dbus-x11 dh-make debian-keyring meshlab embassy emboss-doc emboss-test fastlink-doc fontforge bash-completion g++-multilib g++-4.9-multilib gcc-4.9-doc libstdc++6-4.9-dbg gamgi-data gamgi-doc garlic-doc openbabel gawk-doc gbrowse-data gbrowse-calign libfile-nfslock-perl gcc-multilib autoconf automake libtool flex bison gdb gcc-doc gcc-4.9-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan1-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libquadmath0-dbg gdpc-examples gqview gettext-doc postscript-viewer gfortran-multilib gfortran-doc gfortran-4.9-multilib gfortran-4.9-doc libgfortran3-dbg ghostscript-x feedgnuplot gnuplot-doc libgnuplot-iostream-dev python-gnuplot gnustep-base-doc graphviz-doc groff tcsh c-shell gvfs hmmer-doc hmmer2-doc hmmer2-pvm ppp rdnssd net-tools imagemagick-doc autotrace cups-bsd lpr lprng enscript ffmpeg gimp grads hp2xx html2ps libwmf-bin mplayer povray radiance texlive-base-bin transfig ufraw-batch iproute2-doc ipython-doc ipython-notebook ipython-qtconsole python-profiler python-zmq resolvconf avahi-autoipd isoquery equivs javahelp2-doc junit-doc parallel libevent-perl libio-async-perl libpoe-perl libesd0 libesd-alsa0 lrzip libasound2-plugins alsa-utils nas libdigest-hmac-perl libgssapi-perl libaxis-java-doc libbcmail-java-doc libbcpkix-java-doc libbcprov-java-doc libxml-sax-expatxs-perl java-virtual-machine libjgrapht-java libbiojava-java-doc glibc-doc libcanberra-gtk0 libcanberra-pulse libcastor-java-doc libcommons-collections3-java-doc libxz-java libcommons-dbcp-java-doc libgeronimo-jta-1.1-spec-java libcommons-discovery-java-doc libcommons-httpclient-java-doc libcommons-io-java-doc libcommons-jexl2-java-doc libcommons-lang-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java libcommons-net2-java-doc blcr-dkms cups-common libnet-daemon-perl libsql-statement-perl libdom4j-java-doc libfann-dev libfann-doc libfftw3-bin libfftw3-dev alsa-base fonts-dustin libgd-tools glew-utils libiodbc2-dev libmysqlclient-dev libgmp10-doc libmpfr-dev libgnumail-java-doc gnutls-bin gphoto2 gtkam gsl-ref-psdoc gsl-doc-pdf gsl-doc-info gsl-ref-html krb5-doc krb5-user gstreamer-codec-install gnome-codec-install gstreamer1.0-tools libhsqldb-java-doc libdata-dump-perl libhtml-element-extended-perl libhwloc-contrib-plugins libice-doc libdb-file-lock-perl libfile-readbackwards-perl libitext-java-gcj libxml-security-java libitext5-java-doc libjasper-runtime libjava-xmlbuilder-java-doc libjcommon-java-doc libjdom1-java-doc libjgoodies-common-java-doc libjgoodies-forms-java-doc libjmol-java-doc libjs-jquery-ui-docs liblcms2-utils liblog4j1.2-java-doc liblzma-doc inkscape libmail-java-doc libswt-gtk-3-java libslf4j-java ncurses-doc libmime-base64-perl openms-doc uuid libscalar-number-perl pciutils pcscd pulseaudio libqt4-dev qt4-qtconfig readline-doc librsvg2-bin avahi-daemon hplip hpoj libsasl2-modules-otp libsasl2-modules-ldap libsasl2-modules-sql libsasl2-modules-gssapi-mit libsasl2-modules-gssapi-heimdal libsaxonb-java-doc libsm-doc libmime-lite-perl libnet-jabber-perl libstdc++-4.9-doc tcl8.5 tk8.5 tre-agrep libdevel-stacktrace-perl libauthen-ntlm-perl libxcb-doc libxerces2-java-doc libxerces2-java-gcj libxml-commons-resolver1.1-java-doc libunicode-map8-perl libunicode-string-perl xml-twig-tools libxom-java-doc libxt-doc libyaml-shell-perl loki-doc make-doc less man-browser massxpert-doc abyss acacia act amos-assembler amoscmp apollo arachne arb artemis asap augustus axparafit axpcoords bagpipe bambus beads beast-mcmc biceps big-blast bigsdb biomaj-watcher bitseq blat blimps-utils blixem btk-core cactus caftools cain cap3 cdna-db cinema clonalorigin clustalw-mpi cluster3 cmap coalesce codonw compclust contralign coot copycat crac crossbow cufflinks cytoscape das-proserver dazzle decipher e-hive ecell eigensoft elph embassy-phylip emboss-explorer emmax emperor ensembl est-db estferret estscan exalt excavator fasta figaro finex fluctuate forester freebayes fsa galaxy gassst gbioseq gbrowse-syn genemark genesplicer genetrack genezilla genographer ghemical glimmerhmm gmv grabix grogui haploview hawkeye hexamer hilbertvisgui igv jbrowse jigsaw jstreeview kclust kempbasu lagan lamarc logomat-m lucy mach-haplotyper mage2tab maker2 martj maude mauvealigner maxd melting-gui meme mesquite metarep migrate minimus mirbase mobyle mobyle-programs mobyle-tutorials modeller molekel mosaik-aligner mpsqed msatfinder mugsy mummergpu murasaki mview ngila ngsqctoolkit nw-align oases obo-edit oligoarrayaux omegamap operondb pal2nal partigene patman patristic pcma pfaat pftools phagefinder phpphylotree phylographer phyloviz-core phylowin plato profit prot4est pscan-tfbs psipred pyrophosphate-tools python-orange python-reaper qtlcart r-cran-boolnet r-other-valdar-bagphenotype.library raccoon rbs-finder rdp-classifier recombine relion-bin-mpi relion-gui repeatmasker rmblast roche454ace2caf rose rosetta seq-gen sequenceconverter.app sga sift situs snpeff spades spice splitstree spread-phy ssaha strap strap-base tacg taverna taxinspector tetra tigr-assembler tigr-glimmer-mg trace2dbest tracetuner treebuilder3d treetime tripal trnascan-se twain ugene unc-fish uniprime varscan vienna-rna vmd wgs-assembler x-tandem-pipeline zodiac-zeden menu-l10n gksu kde-runtime ktsuss mira-examples mira-doc mrbayes-doc mustang-testdata opencl-icd openjdk-7-demo openjdk-7-source visualvm icedtea-7-plugin icedtea-7-jre-jamvm libnss-mdns sun-java6-fonts fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei fonts-wqy-zenhei fonts-indic openmpi-checkpoint openms-doc1.11 ssh-askpass libpam-ssh keychain monkeysphere diffutils-doc libterm-readline-gnu-perl libterm-readline-perl-perl libb-lint-perl libcpanplus-dist-build-perl libcpanplus-perl libfile-checktree-perl libobject-accessor-perl perlprimer-doc phylip-doc libmail-box-perl poppler-utils fonts-arphic-ukai fonts-arphic-uming fonts-nanum pp-cache-mgr predictprotein-nonfree probcons-extra profchop profcon metadisorder snapfun pdf-viewer uclust python-rdflib python-psycopg2 python-cogent-doc python-crypto-dbg python-crypto-doc texlive-lang-french python-egenix-mxdatetime-dbg python-egenix-mxdatetime-doc python-egenix-mxtools-dbg python-egenix-mxtools-doc python-gdata-doc python-twisted-core python-gtk2-doc python-gobject-2-dbg python-jinja2-doc python-lxml-dbg python-beaker python-mako-doc gir1.2-gtk-3.0 python-cairocffi python-configobj python-excelerator python-gobject python-matplotlib-doc python-qt4 python-tornado python-traits ttf-staypuft python-mock-doc python-gmpy2 python-mpmath-doc python-mysqldb-dbg python-coverage python-nose-doc python-numpy-dbg python-numpy-doc python-pexpect-doc python-pil-doc python-pil-dbg python-distribute python-distribute-doc python-pmw-doc pyfits-utils ttf-bitstream-vera python-pysqlite2-doc python-pysqlite2-dbg python-renderpm-dbg python-egenix-mxtexttools python-reportlab-doc libjs-mathjax python-sqlalchemy-doc python-kinterbasdb python-pymssql tix python-tk-dbg python2.7-doc python3-doc python3-tk python3-venv python3-setuptools python3.4-venv python3.4-doc torque-client r-doc-info r-doc-pdf r-mathlib r-base-html texinfo r-bioc-snpstats r-cran-expm r-cran-rmysql r-cran-genetics r-cran-haplo.stats r-bioc-qvalue r-cran-mapdata r-cran-snow r-cran-inline r-cran-runit r-cran-rgdal r-cran-rgeos r-cran-devtools r-cran-scatterplot3d r-cran-rgl r-cran-ncdf r-cran-bigmemory r-cran-rocr rasmol-doc raster3d-doc openssh-server ri ruby-dev bundler unpaper avida-base genesis med-bio-dev sgml-base-doc sqlite3-doc ssake-examples openssl-blacklist staden-doc staden-io-lib-examples prolog-el t-coffee-examples tcl-tclreadline latexdiff latexmk dvidvi fragmaster lacheck purifyeps xindy chktex psutils t1utils cm-super libtcltk-ruby dot2tex treetool velvet-example wise-doc mesa-utils nickle cairo-5c xorg-docs-core gvfs-bin xfonts-cyrillic Recommended packages: libgd-gd2-perl libstorable-perl libstdc++-4.8-dev libstdc++-dev libarchive-tar-perl libcompress-zlib-perl python-ctypes r-cran-vr wish The following NEW packages will be installed: abacas acedb-other acedb-other-belvu acedb-other-dotter adun.app adwaita-icon-theme aevol aglfn alien-hunter altree amap-align ampliconnoise anfo ant ant-contrib ant-optional apache2 apache2-bin apache2-data apache2-utils apbs aragorn arden aspell aspell-en at-spi2-core autodock autodock-vina autogrid autopoint autotools-dev ballview bamtools bauble bc bedtools binfmt-support binutils biomaj bioperl bioperl-run biosquid blast2 blends-common blt bowtie bowtie2 boxshade bsdmainutils build-essential bwa bzip2 bzip2-doc ca-certificates ca-certificates-java cassiopee cd-hit cdbfasta cdbs chimeraslayer circos circos-tools clearcut clonalframe clustalo clustalw clustalx colord colord-data concavity conservation-code cpp cpp-4.9 critterding curl cython dbus dconf-gsettings-backend dconf-service debhelper default-jre default-jre-headless dh-python dialign dialign-tx dialign-tx-data dictionaries-common discosnp disulfinder disulfinder-data dmidecode dnaclust docutils-common docutils-doc dpkg-dev dssp dvipng edtsurf emacsen-common embassy-domainatrix embassy-domalign embassy-domsearch emboss emboss-data emboss-lib exonerate fakeroot fastaq fastdnaml fastjar fastlink fastqc fasttree fastx-toolkit ffindex figtree file filo fitgcp flexbar fontconfig fontconfig-config fonts-cabin fonts-circos-symbols fonts-cmu fonts-comfortaa fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu fonts-dejavu-core fonts-dejavu-extra fonts-droid fonts-ebgaramond fonts-ebgaramond-extra fonts-font-awesome fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-inconsolata fonts-junicode fonts-lato fonts-liberation fonts-linuxlibertine fonts-lmodern fonts-lobster fonts-lobstertwo fonts-lyx fonts-oflb-asana-math fonts-sil-gentium fonts-sil-gentium-basic fonts-stix fonts-texgyre freecontact freeglut3 g++ g++-4.9 gamgi garlic gasic gawk gbrowse gcc gcc-4.9 gdpc genometools genometools-common gentle gettext gettext-base gff2aplot gff2ps gfortran gfortran-4.9 ghostscript giira glam2 glib-networking glib-networking-common glib-networking-services glpk-utils gnuplot gnuplot-data gnuplot-qt gnuplot-tex gnustep-back-common gnustep-back0.24 gnustep-back0.24-cairo gnustep-base-common gnustep-base-runtime gnustep-common gnustep-gui-common gnustep-gui-runtime graphviz grinder groff-base gromacs gromacs-data gsettings-desktop-schemas gsfonts gstreamer1.0-plugins-base hhsuite hhsuite-data hicolor-icon-theme hmmer hmmer2 icedtea-netx-common idba ifupdown imagemagick imagemagick-6.q16 imagemagick-common infernal init-system-helpers intltool-debian ipig iproute2 ipython isc-dhcp-client isc-dhcp-common iso-codes jalview jarwrapper java-common java-wrappers javahelp2 javascript-common jellyfish jmol jmol-applet junit junit4 kalign king kissplice krb5-locales ksh laptop-detect last-align libace-perl libai-fann-perl libalgorithm-c3-perl libalgorithm-diff-perl libalgorithm-diff-xs-perl libalgorithm-merge-perl libalgorithm-munkres-perl libamd2.3.1 libanfo0 libanyevent-cachedns-perl libanyevent-http-perl libanyevent-perl libao-common libao4 libapache-dbi-perl libapache-mime4j-java libapache-pom-java libapache2-mod-perl2 libapache2-reload-perl libapr1 libaprutil1 libaprutil1-dbd-sqlite3 libaprutil1-ldap libarchive-extract-perl libarchive13 libargtable2-0 libarray-compare-perl libart-2.0-2 libasan1 libasound2 libasound2-data libaspell15 libasprintf-dev libasprintf0c2 libasync-interrupt-perl libasyncns0 libatk-bridge2.0-0 libatk-wrapper-java libatk-wrapper-java-jni libatk1.0-0 libatk1.0-data libatlas3-base libatm1 libatomic1 libatspi2.0-0 libaudio2 libauthen-sasl-perl libavahi-client3 libavahi-common-data libavahi-common3 libaxis-java libb-hooks-op-check-perl libball1.4 libball1.4-data libballview1.4 libbambamc0 libbamtools2.3.0 libbareword-filehandles-perl libbcmail-java libbcpkix-java libbcprov-java libbio-asn1-entrezgene-perl libbio-graphics-perl libbio-perl-perl libbio-perl-run-perl libbio-scf-perl libbiojava-java libbiojava1.7-java libbit-vector-perl libblas-common libblas-dev libblas3 libboost-chrono1.55.0 libboost-date-time1.55.0 libboost-filesystem1.55.0 libboost-iostreams1.55.0 libboost-math1.55.0 libboost-mpi1.55.0 libboost-program-options1.55.0 libboost-random1.55.0 libboost-regex1.55.0 libboost-serialization1.55.0 libboost-system1.55.0 libboost-thread1.55.0 libboost-timer1.55.0 libbsd-resource-perl libbsd0 libbytecode-java libbz2-dev libc-dev-bin libc6-dev libcaca0 libcache-cache-perl libcairo-gobject2 libcairo2 libcanberra-gtk3-0 libcanberra-gtk3-module libcanberra0 libcap-ng0 libcarp-always-perl libcarp-clan-perl libcassie1 libcastor-core-java libcastor-xml-java libcbf0 libcdparanoia0 libcdt5 libcfitsio2 libcgi-fast-perl libcgi-pm-perl libcgi-session-perl libcgraph6 libcilkrts5 libclass-c3-perl libclass-c3-xs-perl libclass-inspector-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcloog-isl4 libcneartree5 libcofoja-java libcolamd2.8.0 libcolord2 libcolorhug2 libcommon-sense-perl libcommons-cli-java libcommons-codec-java libcommons-collections3-java libcommons-compress-java libcommons-dbcp-java libcommons-discovery-java libcommons-httpclient-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-math3-java libcommons-net1-java libcommons-net2-java libcommons-parent-java libcommons-pool-java libconfig-general-perl libconfig-inifiles-perl libconvert-binary-c-perl libconvert-binhex-perl libcpan-meta-perl libcqrlib2 libcr0 libcroco3 libcrypt-rc4-perl libcrypt-ssleay-perl libcups2 libcupsfilters1 libcupsimage2 libcurl3 libcurl3-gnutls libcvector2 libdata-dumper-simple-perl libdata-optlist-perl libdata-section-perl libdata-stag-perl libdate-calc-perl libdate-calc-xs-perl libdate-manip-perl libdatrie1 libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl libdbus-1-3 libdconf1 libdevel-caller-perl libdevel-globaldestruction-perl libdevel-lexalias-perl libdevel-symdump-perl libdigest-perl-md5-perl libdirectfb-1.2-9 libdjvulibre-text libdjvulibre21 libdns-export100 libdom4j-java libdpkg-perl libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libelfg0 libelk0 libencode-locale-perl liberror-perl libev-perl libexif12 libexpat1 libexpat1-dev libexporter-tiny-perl libfakeroot libfann2 libfcgi-perl libffi6 libffindex0 libfftw3-double3 libfftw3-single3 libfile-basedir-perl libfile-chdir-perl libfile-copy-recursive-perl libfile-desktopentry-perl libfile-fcntllock-perl libfile-homedir-perl libfile-listing-perl libfile-mimeinfo-perl libfile-slurp-tiny-perl libfile-which-perl libflac8 libflite1 libfltk-images1.3 libfltk1.3 libfont-afm-perl libfont-ttf-perl libfontconfig1 libfontenc1 libfreecontact0 libfreehep-export-java libfreehep-graphics2d-java libfreehep-graphicsio-emf-java libfreehep-graphicsio-java libfreehep-graphicsio-pdf-java libfreehep-graphicsio-ps-java libfreehep-graphicsio-svg-java libfreehep-graphicsio-swf-java libfreehep-graphicsio-tests-java libfreehep-io-java libfreehep-swing-java libfreehep-util-java libfreehep-xml-java libfreetype6 libfreezethaw-perl libftgl2 libg20 libgcc-4.9-dev libgd-graph-perl libgd-perl libgd-svg-perl libgd-text-perl libgd3 libgdbm3 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgenometools0 libgetopt-euclid-perl libgetopt-simple-perl libgettextpo-dev libgettextpo0 libgflags2 libgfortran-4.9-dev libgfortran3 libgif4 libgl1-mesa-dri libgl1-mesa-glx libglade2-0 libglapi-mesa libglew1.10 libglib2.0-0 libglib2.0-data libglpk-java libglpk36 libglu1-mesa libgmp-dev libgmp10 libgmpxx4ldbl libgnuinet-java libgnumail-java libgnustep-base1.24 libgnustep-gui0.24 libgnutls-deb0-28 libgo-perl libgomp1 libgoogle-glog0 libgphoto2-6 libgphoto2-l10n libgphoto2-port10 libgraph-perl libgraphics-colornames-perl libgraphics-colorobject-perl libgraphite2-3 libgraphviz-perl libgs9 libgs9-common libgsl0ldbl libgssapi-krb5-2 libgstreamer-plugins-base1.0-0 libgstreamer1.0-0 libgtextutils0 libgtk-3-0 libgtk-3-bin libgtk-3-common libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libgtkglext1 libguard-perl libgudev-1.0-0 libgusb2 libgvc6 libgvpr2 libhamcrest-java libharfbuzz-icu0 libharfbuzz0b libhdf5-8 libheap-perl libhmsbeagle1 libhogweed2 libhpdf-2.2.1 libhsqldb-java libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tableextract-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhttpclient-java libhttpcore-java libhttpmime-java libhwloc-plugins libhwloc5 libibverbs1 libice-dev libice6 libicu52 libidn11 libieee1284-3 libijs-0.35 libilmbase6 libimport-into-perl libindirect-perl libio-all-perl libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libipc-sharelite-perl libirs-export91 libisc-export95 libisccfg-export90 libisl10 libisorelax-java libitext-java libitext5-java libitm1 libjaba-client-java libjam-java libjas-plotter-java libjasper1 libjava-xmlbuilder-java libjaxen-java libjbig0 libjbig2dec0 libjbzip2-java libjcode-pm-perl libjcommon-java libjdom1-java libjebl2-java libjellyfish-2.0-2 libjets3t-java libjgoodies-common-java libjgoodies-forms-java libjmol-java libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery libjs-jquery-ui libjs-prototype libjs-scriptaculous libjs-sphinxdoc libjs-underscore libjsch-java libjson-c2 libjson-glib-1.0-0 libjson-glib-1.0-common libjson-perl libjson-xs-perl libjsoncpp0 libjswingreader-java libjzlib-java libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 liblexical-sealrequirehints-perl liblist-allutils-perl liblist-moreutils-perl libllvm3.5 liblog-message-perl liblog-message-simple-perl liblog4cpp5 liblog4j1.2-java liblqr-1-0 liblsan0 libltdl7 liblua5.1-0 liblwp-mediatypes-perl liblwp-protocol-https-perl liblzma-dev liblzo2-2 libmagic1 libmagickcore-6.q16-2 libmagickcore-6.q16-2-extra libmagickwand-6.q16-2 libmail-java libmail-sendmail-perl libmailtools-perl libmaloc1 libmath-bezier-perl libmath-derivative-perl libmath-random-mt-perl libmath-round-perl libmath-spline-perl libmath-tamuanova-perl 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qiime ray science-tasks science-config science-biology snap vcftools E: There are problems and -y was used without --force-yes 0m6.1s ERROR: Command failed (status=100): ['chroot', '/srv/piuparts.debian.org/tmp/tmpjjuap_13', 'apt-get', '-y', 'install', 'science-biology'] Reading package lists... Building dependency tree... 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libisccfg-export90 libisl10 libisorelax-java libitext-java libitext5-java libitm1 libjaba-client-java libjam-java libjas-plotter-java libjasper1 libjava-xmlbuilder-java libjaxen-java libjbig0 libjbig2dec0 libjbzip2-java libjcode-pm-perl libjcommon-java libjdom1-java libjebl2-java libjellyfish-2.0-2 libjets3t-java libjgoodies-common-java libjgoodies-forms-java libjmol-java libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery libjs-jquery-ui libjs-prototype libjs-scriptaculous libjs-sphinxdoc libjs-underscore libjsch-java libjson-c2 libjson-glib-1.0-0 libjson-glib-1.0-common libjson-perl libjson-xs-perl libjsoncpp0 libjswingreader-java libjzlib-java libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 liblexical-sealrequirehints-perl liblist-allutils-perl liblist-moreutils-perl libllvm3.5 liblog-message-perl liblog-message-simple-perl liblog4cpp5 liblog4j1.2-java liblqr-1-0 liblsan0 libltdl7 liblua5.1-0 liblwp-mediatypes-perl liblwp-protocol-https-perl liblzma-dev liblzo2-2 libmagic1 libmagickcore-6.q16-2 libmagickcore-6.q16-2-extra libmagickwand-6.q16-2 libmail-java libmail-sendmail-perl libmailtools-perl libmaloc1 libmath-bezier-perl libmath-derivative-perl libmath-random-mt-perl libmath-round-perl libmath-spline-perl libmath-tamuanova-perl libmath-vec-perl libmath-vecstat-perl libmiglayout-java libmime-tools-perl libmldbm-perl libmng1 libmodule-build-perl libmodule-implementation-perl libmodule-pluggable-perl libmodule-runtime-perl libmodule-signature-perl libmoo-perl libmotif-common libmpc3 libmpdec2 libmpfr4 libmro-compat-perl libmsv-java libmultidimensional-perl libmysql-java libmysqlclient18 libnb-org-openide-util-java libnb-org-openide-util-lookup-java libncbi6 libncurses5-dev libncursesw5-dev libnet-dbus-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnetpbm10 libnettle4 libnotify4 libnspr4 libnss3 libnuma1 libobjc4 libogg0 libole-storage-lite-perl libopenexr6 libopenjpeg5 libopenmpi1.6 libopenms1.11 liborc-0.4-0 liboro-java libossp-uuid-perl libossp-uuid16 libp11-kit0 libpackage-constants-perl libpadwalker-perl libpam-systemd libpango-1.0-0 libpango1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpangox-1.0-0 libpangoxft-1.0-0 libpaper-utils libpaper1 libparams-classify-perl libparams-util-perl libparams-validate-perl libparse-recdescent-perl libpathplan4 libpciaccess0 libpcre3-dev libpcrecpp0 libpcsclite1 libperl4-corelibs-perl libperl5.20 libperlio-gzip-perl libpipeline1 libpixman-1-0 libpng12-0 libpng12-dev libpod-coverage-perl libpod-latex-perl libpod-readme-perl libpolkit-agent-1-0 libpolkit-backend-1-0 libpolkit-gobject-1-0 libpoppler-qt4-4 libpoppler46 libpopt0 libpostscript-perl libpotrace0 libpq5 libprotobuf9 libproxy1 libptexenc1 libpth20 libpthread-stubs0-dev libpulse0 libpvm3 libpython-all-dev libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.4-minimal libpython3.4-stdlib libqt4-network libqt4-opengl libqt4-sql libqt4-sql-mysql libqt4-svg libqt4-test libqt4-xml libqt4-xmlpatterns libqtcore4 libqtdbus4 libqtgui4 libqtwebkit4 libquadmath0 libreadline-dev libreadline6-dev libreadonly-perl libregexp-common-perl libregexp-java librelaxng-datatype-java librelion-1.3-1 librest-0.7-0 librg-exception-perl librg-reprof-bundle-perl librg-utils-perl librole-tiny-perl librsvg2-2 librsvg2-common librtmp1 libruby2.1 libsam-java libsane libsane-common libsane-extras libsane-extras-common libsasl2-2 libsasl2-modules libsasl2-modules-db libsaxonb-java libsctp1 libsdl1.2debian libservlet2.5-java libset-intspan-perl libset-scalar-perl libsigsegv2 libsm-dev libsm6 libsndfile1 libsnp-sites1 libsoap-lite-perl libsoftware-license-perl libsort-naturally-perl libsoup-gnome2.4-1 libsoup2.4-1 libspiffy-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsprng2 libsqlite0 libsqlite3-0 libsquizz libssh2-1 libssl1.0.0 libstaden-read1 libstatistics-descriptive-perl libstdc++-4.9-dev libstrictures-perl libstring-approx-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-install-perl libsub-name-perl libsvg-graph-perl libsvg-perl libsvm3 libsynctex1 libsys-hostname-long-perl libtablelayout-java libtamuanova-0.2 libtask-weaken-perl libtasn1-6 libtbb2 libtcl8.5 libtcl8.6 libtcmalloc-minimal4 libtdb1 libterm-readkey-perl libterm-ui-perl libtest-pod-perl libtext-format-perl libtext-soundex-perl libtext-template-perl libthai-data libthai0 libtheora0 libtie-ixhash-perl libtiff5 libtimedate-perl libtinfo-dev libtinyxml2.6.2 libtk8.5 libtk8.6 libtre5 libtree-dagnode-perl libtry-tiny-perl libtsan0 libtxc-dxtn-s2tc0 libtype-tiny-perl libtype-tiny-xs-perl libubsan0 libunicode-map-perl libunistring0 libunwind8 liburi-perl libusb-1.0-0 libutempter0 libv4l-0 libv4lconvert0 libvamsas-client-java libvibrant6b libvisual-0.4-0 libvisual-0.4-plugins libvm-ec2-perl libvorbis0a libvorbisenc2 libvorbisfile3 libvpx1 libvte-common libvte9 libwayland-client0 libwayland-cursor0 libwebp5 libwebpdemux1 libwebpmux1 libwmf0.2-7 libwrap0 libwsdl4j-java libwww-perl libwww-robotrules-perl libwxbase3.0-0 libwxgtk3.0-0 libx11-6 libx11-data libx11-dev libx11-doc libx11-protocol-perl libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxdot4 libxerces-c3.1 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxm4 libxml-checker-perl libxml-commons-external-java libxml-commons-resolver1.1-java libxml-dom-perl libxml-dom-xpath-perl libxml-filter-buffertext-perl libxml-libxml-perl libxml-libxslt-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpath-perl libxml-xpathengine-perl libxml2 libxmlrpc-lite-perl libxmu6 libxmuu1 libxom-java libxpm4 libxpp2-java libxpp3-java libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxt-dev libxt6 libxtables10 libxtst6 libxv1 libxxf86dga1 libxxf86vm1 libyaml-0-2 libyaml-libyaml-perl libyaml-perl libyaml-tiny-perl libzeep3.0 libzzip-0-13 linux-libc-dev littler lksctp-tools lmodern logol-bin loki ltrsift lua-filesystem lua-lpeg lua-md5 lynx lynx-cur macs mafft make man-db manpages manpages-dev mapsembler2 maq maqview massxpert massxpert-data med-bio med-config med-tasks melting menu metastudent metastudent-data metastudent-data-2 microbiomeutil microbiomeutil-data mime-support minia mipe mira-assembler mknfonts.tool mlv-smile mothur mpi-default-bin mrbayes mrs mummer muscle mustang mysql-client mysql-client-5.5 mysql-common nast-ier ncbi-blast+ ncbi-data ncbi-epcr ncbi-seg ncbi-tools-bin ncbi-tools-x11 ncoils neobio netbase netpbm njplot norsnet norsp notification-daemon ocl-icd-libopencl1 openjdk-7-jdk openjdk-7-jre openjdk-7-jre-headless openmpi-bin openmpi-common openms openms-common openssh-client openssl paraclu parsinsert patch pdb2pqr perl perl-doc perl-modules perl-tk perlprimer perm phylip phyml phyutility picard-tools plasmidomics plink po-debconf poa policykit-1 poppler-data populations pp-popularity-contest prank predictnls predictprotein prerex preview-latex-style prime-phylo primer3 proalign probabel probalign probcons proda prodigal profbval profisis profnet-bval profnet-chop profnet-con profnet-isis profnet-md profnet-norsnet profnet-prof profnet-snapfun profphd profphd-net profphd-utils proftmb prosper ps2eps pvm pycorrfit pymol pynast pyqi pyscanfcs python python-all python-all-dev python-ball python-ballview python-biom-format python-biopython python-biopython-doc python-cairo python-chardet python-cogent python-crypto python-dateutil python-decorator python-dev python-docutils python-egenix-mxdatetime python-egenix-mxtools python-gdata python-glade2 python-gmpy python-gobject-2 python-gtk2 python-h5py python-htseq python-imaging python-jinja2 python-lxml python-mako python-markupsafe python-matplotlib python-matplotlib-data python-minimal python-mock python-mpi4py python-mpmath python-multipletau python-mysqldb python-nose python-numpy python-pexpect python-pil python-pkg-resources python-pmw python-pyfits python-pyglet python-pygments python-pyparsing python-pyrex python-pysam python-pysqlite2 python-qcli python-renderpm python-reportlab python-reportlab-accel python-roman python-scipy python-simplegeneric python-sip python-six python-sphinx python-sqlalchemy python-sqlalchemy-ext python-support python-sympy python-tk python-tz python-wxgtk3.0 python-wxversion python-yaml python2.7 python2.7-dev python2.7-minimal python3 python3-minimal python3-nose python3-pkg-resources python3.4 python3.4-minimal qiime qiime-data qtcore4-l10n r-base-core r-base-dev r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biomart r-bioc-biostrings r-bioc-biovizbase r-bioc-bsgenome r-bioc-cummerbund r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-gviz r-bioc-hilbertvis r-bioc-iranges r-bioc-rsamtools r-bioc-rtracklayer r-bioc-shortread r-bioc-variantannotation r-bioc-xvector r-cran-abind r-cran-ape r-cran-base64enc r-cran-batchjobs r-cran-bbmisc r-cran-bitops r-cran-boot r-cran-brew r-cran-checkmate r-cran-chron r-cran-class r-cran-cluster r-cran-codetools r-cran-colorspace r-cran-dbi r-cran-dichromat r-cran-digest r-cran-domc r-cran-doparallel r-cran-evaluate r-cran-fail r-cran-fastcluster r-cran-foreach r-cran-foreign r-cran-formula r-cran-g.data r-cran-genabel r-cran-genabel.data r-cran-getopt r-cran-ggplot2 r-cran-gtable r-cran-hmisc r-cran-hwriter r-cran-iterators r-cran-kernsmooth r-cran-labeling r-cran-lattice r-cran-latticeextra r-cran-mapproj r-cran-maps r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-mgcv r-cran-multicore r-cran-munsell r-cran-nlme r-cran-nnet r-cran-optparse r-cran-permute r-cran-pkgkitten r-cran-plyr r-cran-proto r-cran-qtl r-cran-r.methodss3 r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-reshape2 r-cran-rpart r-cran-rsqlite r-cran-scales r-cran-sendmailr r-cran-sp r-cran-spatial r-cran-stringr r-cran-survival r-cran-tcltk2 r-cran-testthat r-cran-vegan r-cran-xml r-doc-html r-other-bio3d r-other-mott-happy.hbrem r-recommended rasmol raster3d rate4site raxml ray readseq relion-bin rename reprof rnahybrid rsync rtax ruby ruby2.1 rubygems-integration saint samtools sane-utils science-config science-tasks seaview seqan-apps seqtk sgml-base shared-mime-info sibsim4 sigma-align sim4 smalt snap snp-sites soapdenovo soapdenovo2 sphinx-common sphinx-doc sqlite3 squizz sra-toolkit sra-toolkit-libs0 ssake ssl-cert staden staden-common staden-io-lib-utils swi-prolog swi-prolog-nox swi-prolog-x t-coffee tabix tasksel tasksel-data tcl tcl8.6 tcllib tcpd tex-common tex-gyre texlive-base texlive-binaries texlive-extra-utils texlive-font-utils texlive-fonts-extra texlive-fonts-extra-doc texlive-fonts-recommended texlive-fonts-recommended-doc texlive-generic-recommended texlive-latex-base texlive-latex-base-doc texlive-latex-extra texlive-latex-extra-doc texlive-latex-recommended texlive-latex-recommended-doc texlive-math-extra texlive-pictures texlive-pictures-doc texlive-pstricks texlive-pstricks-doc theseus tigr-glimmer tipa tk tk-table tk8.6 tk8.6-blt2.5 tklib tm-align tophat topp transtermhp tree-puzzle tree-puzzle-doc treeviewx trimmomatic ttf-adf-accanthis ttf-adf-gillius ttf-adf-universalis ttf-dejavu ttf-dejavu-core ttf-dejavu-extra tzdata-java uc-echo ucf unzip update-inetd vcftools velvet velvetoptimiser vprerex wigeon wise wise-data x11-common x11-utils x11-xserver-utils x11proto-core-dev x11proto-input-dev x11proto-kb-dev xauth xbitmaps xdg-user-dirs xdg-utils xkb-data xml-core xorg-sgml-doctools xsltproc xterm xtrans-dev xz-utils zalign zip zlib1g-dev Suggested packages: altree-examples ant-doc ant-gcj default-jdk java-compiler java-sdk libbcel-java ivy ant-optional-gcj antlr javacc jython libbsf-java libcommons-net-java libjaxp1.3-java libjdepend-java libxalan2-java www-browser apache2-doc apache2-suexec-pristine apache2-suexec-custom aspell-doc spellutils autodocktools binutils-doc mysql-server gmap paml ncbi-rrna-data blends-doc blt-demo bowtie-examples bowtie2-examples xfig wamerican wordlist whois vacation devscripts cpp-doc gcc-4.9-locales dbus-x11 dh-make debian-keyring meshlab embassy emboss-doc emboss-test fastlink-doc fontforge bash-completion g++-multilib g++-4.9-multilib gcc-4.9-doc libstdc++6-4.9-dbg gamgi-data gamgi-doc garlic-doc openbabel gawk-doc gbrowse-data gbrowse-calign libfile-nfslock-perl gcc-multilib autoconf automake libtool flex bison gdb gcc-doc gcc-4.9-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan1-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libquadmath0-dbg gdpc-examples gqview gettext-doc postscript-viewer gfortran-multilib gfortran-doc gfortran-4.9-multilib gfortran-4.9-doc libgfortran3-dbg ghostscript-x feedgnuplot gnuplot-doc libgnuplot-iostream-dev python-gnuplot gnustep-base-doc graphviz-doc groff tcsh c-shell gvfs hmmer-doc hmmer2-doc hmmer2-pvm ppp rdnssd net-tools imagemagick-doc autotrace cups-bsd lpr lprng enscript ffmpeg gimp grads hp2xx html2ps libwmf-bin mplayer povray radiance texlive-base-bin transfig ufraw-batch iproute2-doc ipython-doc ipython-notebook ipython-qtconsole python-profiler python-zmq resolvconf avahi-autoipd isoquery equivs javahelp2-doc junit-doc parallel libevent-perl libio-async-perl libpoe-perl libesd0 libesd-alsa0 lrzip libasound2-plugins alsa-utils nas libdigest-hmac-perl libgssapi-perl libaxis-java-doc libbcmail-java-doc libbcpkix-java-doc libbcprov-java-doc libxml-sax-expatxs-perl java-virtual-machine libjgrapht-java libbiojava-java-doc glibc-doc libcanberra-gtk0 libcanberra-pulse libcastor-java-doc libcommons-collections3-java-doc libxz-java libcommons-dbcp-java-doc libgeronimo-jta-1.1-spec-java libcommons-discovery-java-doc libcommons-httpclient-java-doc libcommons-io-java-doc libcommons-jexl2-java-doc libcommons-lang-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java libcommons-net2-java-doc blcr-dkms cups-common libnet-daemon-perl libsql-statement-perl libdom4j-java-doc libfann-dev libfann-doc libfftw3-bin libfftw3-dev alsa-base fonts-dustin libgd-tools glew-utils libiodbc2-dev libmysqlclient-dev libgmp10-doc libmpfr-dev libgnumail-java-doc gnutls-bin gphoto2 gtkam gsl-ref-psdoc gsl-doc-pdf gsl-doc-info gsl-ref-html krb5-doc krb5-user gstreamer-codec-install gnome-codec-install gstreamer1.0-tools libhsqldb-java-doc libdata-dump-perl libhtml-element-extended-perl libhwloc-contrib-plugins libice-doc libdb-file-lock-perl libfile-readbackwards-perl libitext-java-gcj libxml-security-java libitext5-java-doc libjasper-runtime libjava-xmlbuilder-java-doc libjcommon-java-doc libjdom1-java-doc libjgoodies-common-java-doc libjgoodies-forms-java-doc libjmol-java-doc libjs-jquery-ui-docs liblcms2-utils liblog4j1.2-java-doc liblzma-doc inkscape libmail-java-doc libswt-gtk-3-java libslf4j-java ncurses-doc libmime-base64-perl openms-doc uuid libscalar-number-perl pciutils pcscd pulseaudio libqt4-dev qt4-qtconfig readline-doc librsvg2-bin avahi-daemon hplip hpoj libsasl2-modules-otp libsasl2-modules-ldap libsasl2-modules-sql libsasl2-modules-gssapi-mit libsasl2-modules-gssapi-heimdal libsaxonb-java-doc libsm-doc libmime-lite-perl libnet-jabber-perl libstdc++-4.9-doc tcl8.5 tk8.5 tre-agrep libdevel-stacktrace-perl libauthen-ntlm-perl libxcb-doc libxerces2-java-doc libxerces2-java-gcj libxml-commons-resolver1.1-java-doc libunicode-map8-perl libunicode-string-perl xml-twig-tools libxom-java-doc libxt-doc libyaml-shell-perl loki-doc make-doc less man-browser massxpert-doc abyss acacia act amos-assembler amoscmp apollo arachne arb artemis asap augustus axparafit axpcoords bagpipe bambus beads beast-mcmc biceps big-blast bigsdb biomaj-watcher bitseq blat blimps-utils blixem btk-core cactus caftools cain cap3 cdna-db cinema clonalorigin clustalw-mpi cluster3 cmap coalesce codonw compclust contralign coot copycat crac crossbow cufflinks cytoscape das-proserver dazzle decipher e-hive ecell eigensoft elph embassy-phylip emboss-explorer emmax emperor ensembl est-db estferret estscan exalt excavator fasta figaro finex fluctuate forester freebayes fsa galaxy gassst gbioseq gbrowse-syn genemark genesplicer genetrack genezilla genographer ghemical glimmerhmm gmv grabix grogui haploview hawkeye hexamer hilbertvisgui igv jbrowse jigsaw jstreeview kclust kempbasu lagan lamarc logomat-m lucy mach-haplotyper mage2tab maker2 martj maude mauvealigner maxd melting-gui meme mesquite metarep migrate minimus mirbase mobyle mobyle-programs mobyle-tutorials modeller molekel mosaik-aligner mpsqed msatfinder mugsy mummergpu murasaki mview ngila ngsqctoolkit nw-align oases obo-edit oligoarrayaux omegamap operondb pal2nal partigene patman patristic pcma pfaat pftools phagefinder phpphylotree phylographer phyloviz-core phylowin plato profit prot4est pscan-tfbs psipred pyrophosphate-tools python-orange python-reaper qtlcart r-cran-boolnet r-other-valdar-bagphenotype.library raccoon rbs-finder rdp-classifier recombine relion-bin-mpi relion-gui repeatmasker rmblast roche454ace2caf rose rosetta seq-gen sequenceconverter.app sga sift situs snpeff spades spice splitstree spread-phy ssaha strap strap-base tacg taverna taxinspector tetra tigr-assembler tigr-glimmer-mg trace2dbest tracetuner treebuilder3d treetime tripal trnascan-se twain ugene unc-fish uniprime varscan vienna-rna vmd wgs-assembler x-tandem-pipeline zodiac-zeden menu-l10n gksu kde-runtime ktsuss mira-examples mira-doc mrbayes-doc mustang-testdata opencl-icd openjdk-7-demo openjdk-7-source visualvm icedtea-7-plugin icedtea-7-jre-jamvm libnss-mdns sun-java6-fonts fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei fonts-wqy-zenhei fonts-indic openmpi-checkpoint openms-doc1.11 ssh-askpass libpam-ssh keychain monkeysphere diffutils-doc libterm-readline-gnu-perl libterm-readline-perl-perl libb-lint-perl libcpanplus-dist-build-perl libcpanplus-perl libfile-checktree-perl libobject-accessor-perl perlprimer-doc phylip-doc libmail-box-perl poppler-utils fonts-arphic-ukai fonts-arphic-uming fonts-nanum pp-cache-mgr predictprotein-nonfree probcons-extra profchop profcon metadisorder snapfun pdf-viewer uclust python-rdflib python-psycopg2 python-cogent-doc python-crypto-dbg python-crypto-doc texlive-lang-french python-egenix-mxdatetime-dbg python-egenix-mxdatetime-doc python-egenix-mxtools-dbg python-egenix-mxtools-doc python-gdata-doc python-twisted-core python-gtk2-doc python-gobject-2-dbg python-jinja2-doc python-lxml-dbg python-beaker python-mako-doc gir1.2-gtk-3.0 python-cairocffi python-configobj python-excelerator python-gobject python-matplotlib-doc python-qt4 python-tornado python-traits ttf-staypuft python-mock-doc python-gmpy2 python-mpmath-doc python-mysqldb-dbg python-coverage python-nose-doc python-numpy-dbg python-numpy-doc python-pexpect-doc python-pil-doc python-pil-dbg python-distribute python-distribute-doc python-pmw-doc pyfits-utils ttf-bitstream-vera python-pysqlite2-doc python-pysqlite2-dbg python-renderpm-dbg python-egenix-mxtexttools python-reportlab-doc libjs-mathjax python-sqlalchemy-doc python-kinterbasdb python-pymssql tix python-tk-dbg python2.7-doc python3-doc python3-tk python3-venv python3-setuptools python3.4-venv python3.4-doc torque-client r-doc-info r-doc-pdf r-mathlib r-base-html texinfo r-bioc-snpstats r-cran-expm r-cran-rmysql r-cran-genetics r-cran-haplo.stats r-bioc-qvalue r-cran-mapdata r-cran-snow r-cran-inline r-cran-runit r-cran-rgdal r-cran-rgeos r-cran-devtools r-cran-scatterplot3d r-cran-rgl r-cran-ncdf r-cran-bigmemory r-cran-rocr rasmol-doc raster3d-doc openssh-server ri ruby-dev bundler unpaper avida-base genesis med-bio-dev sgml-base-doc sqlite3-doc ssake-examples openssl-blacklist staden-doc staden-io-lib-examples prolog-el t-coffee-examples tcl-tclreadline latexdiff latexmk dvidvi fragmaster lacheck purifyeps xindy chktex psutils t1utils cm-super libtcltk-ruby dot2tex treetool velvet-example wise-doc mesa-utils nickle cairo-5c xorg-docs-core gvfs-bin xfonts-cyrillic Recommended packages: libgd-gd2-perl libstorable-perl libstdc++-4.8-dev libstdc++-dev libarchive-tar-perl libcompress-zlib-perl python-ctypes r-cran-vr wish The following NEW packages will be installed: abacas acedb-other acedb-other-belvu acedb-other-dotter adun.app adwaita-icon-theme aevol aglfn alien-hunter altree amap-align ampliconnoise anfo ant ant-contrib ant-optional apache2 apache2-bin apache2-data apache2-utils apbs aragorn arden aspell aspell-en at-spi2-core autodock autodock-vina autogrid autopoint autotools-dev ballview bamtools 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libcommons-logging-java libcommons-math3-java libcommons-net1-java libcommons-net2-java libcommons-parent-java libcommons-pool-java libconfig-general-perl libconfig-inifiles-perl libconvert-binary-c-perl libconvert-binhex-perl libcpan-meta-perl libcqrlib2 libcr0 libcroco3 libcrypt-rc4-perl libcrypt-ssleay-perl libcups2 libcupsfilters1 libcupsimage2 libcurl3 libcurl3-gnutls libcvector2 libdata-dumper-simple-perl libdata-optlist-perl libdata-section-perl libdata-stag-perl libdate-calc-perl libdate-calc-xs-perl libdate-manip-perl libdatrie1 libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl libdbus-1-3 libdconf1 libdevel-caller-perl libdevel-globaldestruction-perl libdevel-lexalias-perl libdevel-symdump-perl libdigest-perl-md5-perl libdirectfb-1.2-9 libdjvulibre-text libdjvulibre21 libdns-export100 libdom4j-java libdpkg-perl libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libelfg0 libelk0 libencode-locale-perl liberror-perl libev-perl libexif12 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libhsqldb-java libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tableextract-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhttpclient-java libhttpcore-java libhttpmime-java libhwloc-plugins libhwloc5 libibverbs1 libice-dev libice6 libicu52 libidn11 libieee1284-3 libijs-0.35 libilmbase6 libimport-into-perl libindirect-perl libio-all-perl libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libipc-sharelite-perl libirs-export91 libisc-export95 libisccfg-export90 libisl10 libisorelax-java libitext-java libitext5-java libitm1 libjaba-client-java libjam-java libjas-plotter-java libjasper1 libjava-xmlbuilder-java libjaxen-java libjbig0 libjbig2dec0 libjbzip2-java libjcode-pm-perl libjcommon-java libjdom1-java libjebl2-java libjellyfish-2.0-2 libjets3t-java libjgoodies-common-java 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tigr-glimmer tipa tm-align transtermhp tree-puzzle tree-puzzle-doc treeviewx trimmomatic uc-echo velvet velvetoptimiser xbitmaps xterm vprerex wise-data wise x11-utils x11-xserver-utils xauth xdg-user-dirs xsltproc zalign acedb-other acedb-other-belvu acedb-other-dotter ampliconnoise autodock-vina python-gdata bauble concavity conservation-code critterding disulfinder-data disulfinder edtsurf fasttree libffindex0 ffindex freecontact genometools gromacs-data gromacs hhsuite-data hhsuite libconfig-inifiles-perl libev-perl libhwloc-plugins librg-exception-perl librg-reprof-bundle-perl profphd-utils librg-utils-perl libset-scalar-perl lynx-cur lynx med-tasks med-config med-bio openmpi-common openmpi-bin mpi-default-bin ncbi-seg neobio profnet-norsnet norsnet norsp populations pp-popularity-contest predictnls profnet-bval profbval profnet-isis profisis profnet-prof profphd-net profphd proftmb reprof predictprotein profnet-chop profnet-con profnet-md profnet-snapfun pvm pynast python-mpi4py qiime ray science-tasks science-config science-biology snap vcftools E: There are problems and -y was used without --force-yes 0m6.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/shm'] 0m6.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/shm'] 0m6.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/console'] 0m6.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/console'] 0m6.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/ptmx'] 0m6.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/ptmx'] 0m6.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/pts'] 0m6.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/dev/pts'] 0m6.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/proc'] 0m6.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjjuap_13/proc'] 0m6.7s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpjjuap_13'] 0m6.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpjjuap_13'] 0m6.8s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpjjuap_13 0m6.8s ERROR: piuparts run ends. ret=1 End: 2023-01-05 01:03:43 GMT