Start: 2023-04-20 05:17:19 GMT [stretch] Package: med-all Source: debian-med Version: 3.0.1 Installed-Size: 19 Maintainer: Debian Med Packaging Team Architecture: all Recommends: med-bio, med-bio-dev, med-statistics Suggests: med-cloud, med-data, med-dental, med-epi, med-his, med-imaging, med-imaging-dev, med-laboratory, med-oncology, med-pharmacy, med-physics, med-practice, med-psychology, med-rehabilitation, med-tools, med-typesetting Description: Default selection of tasks for Debian Med Description-md5: a76b99b113b87aeb36fdd823ba207597 Section: metapackages Priority: extra Filename: pool/main/d/debian-med/med-all_3.0.1_all.deb Size: 12638 MD5sum: 9b143c89e41ad2f01e092559000a4e81 SHA256: 03b3c9db31670b3448d19f1d35237b944aaa4caca4635c1fe91d6986ae37d951 [buster] Package: med-all Source: debian-med Version: 3.3 Installed-Size: 21 Maintainer: Debian Med Packaging Team Architecture: all Recommends: med-bio, med-bio-dev, med-statistics Suggests: med-cloud, med-data, med-dental, med-epi, med-his, med-imaging, med-imaging-dev, med-laboratory, med-oncology, med-pharmacy, med-physics, med-practice, med-psychology, med-research, med-tools, med-typesetting Description: Default selection of tasks for Debian Med Description-md5: a76b99b113b87aeb36fdd823ba207597 Section: metapackages Priority: optional Filename: pool/main/d/debian-med/med-all_3.3_all.deb Size: 14260 MD5sum: a9f051a369545d2b991ebefcb6123d0b SHA256: 819a277065484001732a24d6d8e0ec944499b0cebde2037b4ac3998f90c84efb 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2buster-rcmd/reference-chroot-metadata.dat --apt med-all=3.3 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2buster-rcmd/reference-chroot-metadata.dat --apt med-all=3.3 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpqa226gpy 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpqa226gpy 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m2.1s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m2.1s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/proc'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/proc'] 0m2.1s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/pts'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/pts'] 0m2.1s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/ptmx'] 0m2.1s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/ptmx'] 0m2.1s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/console'] 0m2.1s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/console'] 0m2.1s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/shm'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/shm'] 0m2.1s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m2.1s DEBUG: Created policy-rc.d and chmodded it. 0m2.1s DEBUG: Created resolv.conf. 0m2.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpqa226gpy/tmp/scripts/ 0m2.1s INFO: Running scripts post_chroot_unpack 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', 'update'] 0m3.2s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', 'update'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.8s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.8s INFO: Running scripts post_setup 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_dummy_users'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_dummy_users'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_forbid_home'] 0m4.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_forbid_home'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.7s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_minimize'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_minimize'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_zz_backports'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_setup_zz_backports'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.8s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.10 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.25 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+b1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed login login 1:4.4-4.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.8s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stretch2buster-rcmd/reference-chroot-metadata.dat 0m4.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpqa226gpy'] 0m5.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpqa226gpy'] 0m5.0s INFO: Running scripts is_testable 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/is_testable_uninstallable'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/is_testable_uninstallable'] 0m5.0s INFO: Running scripts pre_test 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_test_exceptions'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_test_exceptions'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_test_root_password'] 0m5.0s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_test_root_password'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-cache', 'show', '--no-all-versions', 'med-all'] 0m5.3s DUMP: Package: med-all Source: debian-med Version: 3.0.1 Installed-Size: 19 Maintainer: Debian Med Packaging Team Architecture: all Recommends: med-bio, med-bio-dev, med-statistics Suggests: med-cloud, med-data, med-dental, med-epi, med-his, med-imaging, med-imaging-dev, med-laboratory, med-oncology, med-pharmacy, med-physics, med-practice, med-psychology, med-rehabilitation, med-tools, med-typesetting Description-en: Default selection of tasks for Debian Med This package is part of the Debian Med Pure Blend and installs all tasks for a default installation of this blend. Description-md5: a76b99b113b87aeb36fdd823ba207597 Section: metapackages Priority: extra Filename: pool/main/d/debian-med/med-all_3.0.1_all.deb Size: 12638 MD5sum: 9b143c89e41ad2f01e092559000a4e81 SHA256: 03b3c9db31670b3448d19f1d35237b944aaa4caca4635c1fe91d6986ae37d951 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-cache', 'show', '--no-all-versions', 'med-all'] 0m5.3s INFO: apt-cache knows about the following packages: med-all 0m5.3s INFO: Running scripts pre_install 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_database-server'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_database-server'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_exceptions'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_exceptions'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_extras'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_extras'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-cache', 'policy'] 0m5.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-cache', 'policy'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-cache', 'policy', 'med-all'] 0m5.4s DUMP: med-all: Installed: (none) Candidate: 3.0.1 Version table: 3.0.1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-cache', 'policy', 'med-all'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', '-y', 'install', 'med-all'] 59m15.8s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: abacas abyss acedb-other acedb-other-belvu acedb-other-dotter adapterremoval adun-core adwaita-icon-theme aegean aevol aglfn alien-hunter alter-sequence-alignment altree amap-align ampliconnoise andi anfo ant ant-optional apache2 apache2-bin apache2-data apache2-utils apbs aragorn arden ariba art-nextgen-simulation-tools artemis artfastqgenerator at-spi2-core atac augustus augustus-data autoconf autodock autodock-vina autogrid automake autopoint autotools-dev axe-demultiplexer ballview bamtools barrnap bc bcftools beagle beast-mcmc beast2-mcmc bedtools beignet-opencl-icd berkeley-express binfmt-support binutils bio-eagle bio-rainbow bioperl bioperl-run biosquid blasr blast2 blends-common blt bowtie bowtie2 boxshade brig bsdmainutils build-essential bwa bzip2 bzip2-doc ca-certificates ca-certificates-java cassiopee cd-hit cdbfasta cdbs cgview chado-utils chimeraslayer circlator circos circos-tools clearcut clonalframe clustalo clustalw clustalx codonw concavity conservation-code cpp cpp-6 crac cron curl cutadapt cython daligner dascrubber datamash dawg dazzdb dbus dbus-java-bin dconf-gsettings-backend dconf-service debhelper default-jre default-jre-headless dh-autoreconf dh-python dh-strip-nondeterminism dialign dialign-tx dialign-tx-data dindel dirmngr discosnp distro-info-data disulfinder disulfinder-data dmidecode dnaclust docutils-common docutils-doc dpkg-dev dssp dvipng dwgsim ea-utils ecopcr edtsurf eigensoft embassy-domainatrix embassy-domalign embassy-domsearch emboss emboss-data emboss-lib exim4 exim4-base exim4-config exim4-daemon-light exonerate f2j fabio-viewer fakeroot falcon fastahack fastaq fastdnaml fastjar fastlink fastml fastqc fastqtl fasttree fastx-toolkit ffindex figtree file filo fitgcp flexbar fml-asm fontconfig fontconfig-config fonts-cabin fonts-circos-symbols fonts-cmu fonts-comfortaa fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu fonts-dejavu-core fonts-dejavu-extra fonts-droid-fallback 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-junicode fonts-lato fonts-liberation fonts-linuxlibertine fonts-lmodern fonts-lobster fonts-lobstertwo fonts-lyx fonts-mathjax fonts-noto-hinted fonts-noto-mono fonts-oflb-asana-math fonts-roboto-hinted fonts-sil-gentium fonts-sil-gentium-basic fonts-sil-gentiumplus fonts-sil-gentiumplus-compact fonts-stix fonts-texgyre fop freecontact freeglut3 fsa fsm-lite g++ g++-6 gamgi garli garlic gasic gawk gbrowse gcc gcc-6 gdpc genometools genometools-common gentle gettext gettext-base gff2aplot gff2ps gfortran gfortran-6 ghemical ghostscript giira glam2 glib-networking glib-networking-common glib-networking-services glpk-utils gnome-icon-theme gnupg gnupg-agent gnupg-l10n gnuplot gnuplot-data gnuplot-qt gnustep-base-common gnustep-base-runtime gnustep-common gnustep-make gobjc gobjc-6 graphlan graphviz grinder groff-base gromacs gromacs-data gsettings-desktop-schemas gsfonts gstreamer1.0-plugins-base gtk-update-icon-cache gubbins guile-2.0-libs gwama harvest-tools hdf5-helpers hdf5-tools hhsuite hhsuite-data hicolor-icon-theme hilive hisat2 hmmer hmmer2 hyphy-common hyphy-mpi hyphygui icc-profiles-free icedtea-netx icedtea-netx-common icu-devtools idba imagemagick imagemagick-6-common imagemagick-6.q16 indelible infernal info install-info intltool-debian ipig ipython ipython3 iqtree iso-codes isympy isympy-common iva jaligner jarwrapper java-common java-wrappers javascript-common jellyfish jemboss jmodeltest jmol junit junit4 kalign khmer khmer-common kineticstools kineticstools-data king-probe kissplice kmc kmer kraken krb5-locales ksh lambda-align laptop-detect last-align leaff lefse libace-perl libaec-dev libaec0 libai-fann-perl libalgorithm-c3-perl libalgorithm-diff-perl libalgorithm-diff-xs-perl libalgorithm-merge-perl 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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 libxmlgraphics-commons-java libxmlrpc-lite-perl libxmlunit-java libxmu-dev libxmu-headers libxmu6 libxmuu1 libxom-java libxpm4 libxpp2-java libxpp3-java libxrandr2 libxrender-dev libxrender1 libxshmfence-dev libxshmfence1 libxslt1.1 libxss1 libxt-dev libxt6 libxtst6 libxv1 libxxf86dga1 libxxf86vm-dev libxxf86vm1 libxz-java libyaml-0-2 libyaml-libyaml-perl libyaml-perl libyaml-tiny-perl libzerg-perl libzerg0 libzerg0-dev libzeus-jscl-java libzip4 libzstd1 libzzip-0-13 linux-libc-dev littler lmodern logol-bin loki lsb-base lsb-release ltrsift lua-filesystem lua-lpeg lua-md5 lynx lynx-common m4 macs macsyfinder maffilter mafft mailutils mailutils-common make man-db manpages manpages-dev mapdamage mapsembler2 maq maqview mash massxpert massxpert-data mauve-aligner mcl med-bio med-bio-dev med-config med-statistics med-tasks melting menu meryl mesa-common-dev mesa-utils metaphlan2 metaphlan2-data metastudent metastudent-data mhap microbegps microbiomeutil microbiomeutil-data mime-support minia miniasm minimap mipe mira-assembler mira-rfam-12s-rrna mlv-smile mothur mpi-default-bin mpqc mrbayes mummer murasaki murasaki-common muscle mustang mysql-common nanopolish nast-ier ncbi-blast+ ncbi-blast+-legacy ncbi-data ncbi-entrez-direct ncbi-epcr ncbi-seg ncbi-tools-bin ncbi-tools-x11 ncl-tools ncoils neobio netbase netpbm njplot norsnet norsp notification-daemon ocl-icd-libopencl1 octave octave-common octave-info openjdk-8-jre openjdk-8-jre-headless openmpi-bin openmpi-common openssh-client openssl paraclu parafly parallel parsinsert parsnp patch pbalign pbbamtools pbbarcode pbdagcon pbgenomicconsensus pbh5tools pbhoney pbjelly pbsim pbsuite pdb2pqr pdl perl perl-doc perl-modules-5.24 perl-openssl-defaults perl-tk perlprimer perm phipack phybin phylip phyml physamp phyutility picard-tools piler pinentry-curses pirs pirs-profiles pkg-config placnet plasmidomics plast plink plink1.9 plip po-debconf poa poppler-data populations poretools postgresql-client postgresql-client-9.6 postgresql-client-common pp-popularity-contest prank predictnls preview-latex-style prime-phylo primer3 proalign probabel probalign probcons procps proda prodigal profbval profisis profnet-bval profnet-chop profnet-con profnet-isis profnet-md profnet-norsnet profnet-prof profnet-snapfun profphd-net profphd-utils proftmb progressivemauve proj-data prosper proteinortho prottest ps2eps psmisc pstoedit publicsuffix pvm pycorrfit pyfai pymol pymol-data pynast pyqi pyscanfcs python python-alabaster python-antlr python-appdirs python-astropy python-avro python-babel python-babel-localedata python-backports-shutil-get-terminal-size python-ball python-ballview python-biom-format python-biopython python-biopython-doc python-bs4 python-bz2file python-cairo python-cffi-backend python-chardet python-click python-cobra python-cobra-data python-cogent python-colorama python-configobj python-configparser python-corepywrap python-cryptography python-cvxopt python-cycler python-dateutil python-decorator python-dendropy python-dev python-docutils python-enum34 python-fabio python-freecontact python-functools32 python-future python-glade2 python-gmpy python-gobject-2 python-gtk2 python-h5py python-html5lib python-htseq python-idna python-imagesize python-imaging python-intervaltree python-intervaltree-bio python-ipaddress python-ipython python-ipython-genutils python-iso8601 python-jdcal python-jinja2 python-joblib python-kineticstools python-lmfit python-lxml python-mako python-mako-doc python-markupsafe python-matplotlib python-matplotlib-data python-matplotlib-venn python-minimal python-mpi4py python-mpmath python-msgpack python-multipletau python-natsort-doc python-networkx python-nose python-numexpr python-numpy python-numpy-doc python-openbabel python-opengl python-openpyxl python-openssl python-pandas python-pandas-lib python-pathlib2 python-patsy python-pbalign python-pbbanana python-pbcommand python-pbconsensuscore python-pbcore python-pbgenomicconsensus python-pbh5tools python-pbsuite-utils python-pexpect python-pickleshare python-pil python-pkg-resources python-ply python-pmw python-prompt-toolkit python-ptyprocess python-py python-pyasn1 python-pyfai python-pyglet python-pygments python-pygraphviz python-pyopencl python-pyopencl-doc python-pyparsing python-pysam python-pytest python-pytools python-qt4 python-rdkit python-renderpm python-reportlab python-reportlab-accel python-requests python-roman python-rpy2 python-ruffus python-scipy python-screed python-seaborn python-setuptools python-simplegeneric python-simplejson python-singledispatch python-sip python-six python-sklearn python-sklearn-lib python-sortedcontainers python-sphinx python-statsmodels python-statsmodels-lib python-subprocess32 python-sympy python-sympy-doc python-tables python-tables-data python-tables-lib python-tk python-traitlets python-tz python-urllib3 python-wcwidth python-webencodings python-wxgtk3.0 python-wxversion python-xlrd python-xlwt python-yaml python2.7 python2.7-dev python2.7-minimal python3 python3-biopython python3-bs4 python3-bz2file python3-cachecontrol python3-chardet python3-csb python3-cutadapt python3-cycler python3-dateutil python3-decorator python3-dendropy python3-doc python3-fast5 python3-html5lib python3-ipython python3-ipython-genutils python3-jdcal python3-lockfile python3-lxml python3-matplotlib python3-minimal python3-natsort python3-networkx python3-ngs python3-nose python3-numexpr python3-numpy python3-openpyxl python3-pandas python3-pandas-lib python3-pexpect python3-pickleshare python3-pil python3-pkg-resources python3-prompt-toolkit python3-ptyprocess python3-py python3-pyfaidx python3-pygments python3-pymummer python3-pyparsing python3-pysam python3-pytest python3-pyvcf python3-renderpm python3-reportlab python3-reportlab-accel python3-requests python3-scipy python3-screed python3-simplegeneric python3-six python3-skbio python3-tables python3-tables-lib python3-tk python3-traitlets python3-tz python3-urllib3 python3-wcwidth python3-webencodings python3-xopen python3-yaml python3.5 python3.5-doc python3.5-minimal qdbus qt-at-spi qt4-linguist-tools qt4-qmake qt5-gtk-platformtheme qtchooser qtcore4-l10n qtltools qttranslations5-l10n r-base r-base-core r-base-dev r-base-html r-bioc-annotate r-bioc-annotationdbi r-bioc-annotationhub r-bioc-biobase r-bioc-biocgenerics r-bioc-biocinstaller r-bioc-biocparallel r-bioc-biomart r-bioc-biomformat r-bioc-biostrings r-bioc-biovizbase r-bioc-bsgenome r-bioc-cummerbund r-bioc-deseq2 r-bioc-dnacopy r-bioc-ebseq r-bioc-edger r-bioc-ensembldb r-bioc-genefilter r-bioc-geneplotter r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-gviz r-bioc-hilbertvis r-bioc-interactivedisplaybase r-bioc-iranges r-bioc-limma r-bioc-mergeomics r-bioc-metagenomeseq r-bioc-multtest r-bioc-phyloseq r-bioc-qvalue r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-variantannotation r-bioc-xvector r-cran-acepack r-cran-ade4 r-cran-adegenet r-cran-adegraphics r-cran-adephylo r-cran-ape r-cran-assertthat r-cran-base64enc r-cran-bbmle r-cran-beeswarm r-cran-bio3d r-cran-bitops r-cran-blockmodeling r-cran-bold r-cran-boot r-cran-catools r-cran-chron r-cran-class r-cran-cluster r-cran-coda r-cran-codetools r-cran-colorspace r-cran-combinat r-cran-crayon r-cran-curl r-cran-data.table r-cran-dbi r-cran-deldir r-cran-dichromat r-cran-digest r-cran-distory r-cran-doparallel r-cran-dplyr r-cran-ellipse r-cran-evaluate r-cran-fastcluster r-cran-fastmatch r-cran-fields r-cran-foreach r-cran-foreign r-cran-formula r-cran-futile.logger r-cran-futile.options r-cran-future r-cran-g.data r-cran-gam r-cran-gdata r-cran-genabel r-cran-genabel.data r-cran-genetics r-cran-getopt r-cran-ggplot2 r-cran-glmnet r-cran-globals r-cran-gmodels r-cran-googlevis r-cran-gplots r-cran-gridbase r-cran-gridextra r-cran-gtable r-cran-gtools r-cran-haplo.stats r-cran-highr r-cran-hmisc r-cran-htmltable r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-igraph r-cran-inline r-cran-irlba r-cran-iterators r-cran-jsonlite r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-lattice r-cran-latticeextra r-cran-lazyeval r-cran-learnbayes r-cran-listenv r-cran-littler r-cran-luminescence r-cran-magrittr r-cran-maps r-cran-markdown r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-minpack.lm r-cran-multcomp r-cran-multicore r-cran-munsell r-cran-mvtnorm r-cran-nlme r-cran-nmf r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-optparse r-cran-permute r-cran-phangorn r-cran-phylobase r-cran-pkgkitten r-cran-pkgmaker r-cran-plyr r-cran-polspline r-cran-praise r-cran-prettyunits r-cran-progress r-cran-pscbs r-cran-pvclust r-cran-qtl r-cran-quadprog r-cran-quantreg r-cran-r.cache r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6 r-cran-randomforest r-cran-raster r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppgsl r-cran-rcurl r-cran-readxl r-cran-registry r-cran-rentrez r-cran-reshape r-cran-reshape2 r-cran-rgl r-cran-ritis r-cran-rlumshiny r-cran-rms r-cran-rncl r-cran-rnexml r-cran-rngtools r-cran-rocr r-cran-rotl r-cran-rpart r-cran-rredlist r-cran-rsqlite r-cran-sandwich r-cran-scales r-cran-scatterd3 r-cran-segmented r-cran-seqinr r-cran-shape r-cran-shiny r-cran-shinybs r-cran-snow r-cran-solrium r-cran-sourcetools r-cran-sp r-cran-spam r-cran-sparsem r-cran-spatial r-cran-spdep r-cran-stringi r-cran-stringr r-cran-survival r-cran-taxize r-cran-testthat r-cran-th.data r-cran-tibble r-cran-tidyr r-cran-treescape r-cran-uuid r-cran-vegan r-cran-viridis r-cran-xml r-cran-xml2 r-cran-xtable r-cran-yaml r-cran-zoo r-doc-html r-mathlib r-other-mott-happy.hbrem r-recommended rake rambo-k rapmap rasmol raster3d rate4site raxml ray rdkit-data rdp-alignment rdp-classifier rdp-classifier-doc rdp-readseq readline-common readseq reapr rename repeatmasker-recon reprof rhino rna-star rnahybrid roary rsem rsync rtax ruby ruby-bio ruby-crb-blast ruby-did-you-mean ruby-facade ruby-fixwhich ruby-minitest ruby-net-telnet ruby-pathname2 ruby-power-assert ruby-test-unit ruby-threach ruby-trollop ruby2.3 rubygems-integration saint salmon samtools sbmltoolbox scrm scythe seaview seer seqan-apps seqan-dev seqprep seqtk sga sgml-base shared-mime-info sibsim4 sickle sigma-align sim4 sim4db smalt smithwaterman smrtanalysis snap snap-aligner sniffles snp-sites snpomatic soapdenovo soapdenovo2 sortmerna spaced spades sphinx-common sphinx-rtd-theme-common sprai spread-phy sqlite3 squizz sra-toolkit srst2 ssake ssl-cert sspace ssw-align stacks staden staden-common staden-io-lib-utils subread suitename sumaclust sumatra sumtrees surankco swarm swi-prolog swi-prolog-nox swi-prolog-x swig swig3.0 sysstat t-coffee t1utils tabix tantan tasksel tasksel-data tcl tcl8.6 tcllib tcpd tex-common tex-gyre texinfo 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-extra 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-pictures texlive-pictures-doc texlive-pstricks texlive-pstricks-doc texlive-science texlive-science-doc theseus tigr-glimmer time tipa tk tk8.6 tk8.6-blt2.5 tklib tm-align tophat toppred transdecoder transrate-tools transtermhp tree-puzzle tree-puzzle-doc treeview treeviewx trimmomatic trinityrnaseq trinityrnaseq-examples ttf-adf-accanthis ttf-adf-gillius ttf-adf-universalis ttf-bitstream-vera ttf-dejavu ttf-dejavu-core ttf-dejavu-extra ttf-liberation tzdata uc-echo ucf uil unzip varna vcftools velvet velvetoptimiser vsearch wigeon wise wise-data x11-common x11-utils x11-xserver-utils x11proto-core-dev x11proto-damage-dev x11proto-dri2-dev x11proto-fixes-dev x11proto-gl-dev x11proto-input-dev x11proto-kb-dev x11proto-render-dev x11proto-xext-dev x11proto-xf86vidmode-dev xauth xbitmaps xdg-user-dirs xdg-utils xfonts-100dpi xfonts-encodings xfonts-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 ant-optional-gcj antlr javacc jython libbcel-java libmail-java libjdepend-java libjsch-java liboro-java libregexp-java apache2-doc apache2-suexec-pristine | apache2-suexec-custom art-nextgen-simulation-tools-profiles autoconf-archive gnu-standards autoconf-doc autodocktools beagle-doc beast-mcmc-doc beast2-mcmc-doc binutils-doc bio-eagle-examples gmap paml blends-doc blt-demo bowtie-examples bowtie2-examples xfig wamerican | wordlist whois vacation devscripts cpp-doc gcc-6-locales anacron logrotate checksecurity cython-doc default-dbus-session-bus | dbus-session-bus dh-make dbus-user-session libpam-systemd pinentry-gnome3 tor debian-keyring meshlab embassy emboss-doc emboss-test eximon4 exim4-doc-html | exim4-doc-info spf-tools-perl swaks fastlink-doc fastqtl-doc fonts-noto fontforge fop-doc bash-completion g++-multilib g++-6-multilib gcc-6-doc libstdc++6-6-dbg gamgi-data gamgi-doc garlic-doc openbabel gawk-doc gbrowse-data gbrowse-calign libfile-nfslock-perl gcc-multilib flex bison gdb gcc-doc gcc-6-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan3-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx2-dbg libquadmath0-dbg gdpc-examples gqview gettext-doc libasprintf-dev libgettextpo-dev gfortran-multilib gfortran-doc gfortran-6-multilib gfortran-6-doc libgfortran3-dbg libcoarrays-dev ghostscript-x parcimonie xloadimage scdaemon gnuplot-doc gnustep-base-doc gnustep-make-doc gobjc-multilib gobjc-6-multilib libobjc4-dbg graphviz-doc groff tcsh | c-shell gvfs hmmer-doc hmmer2-doc hmmer2-pvm imagemagick-doc autotrace cups-bsd | lpr | lprng enscript ffmpeg gimp grads hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils transfig ufraw-batch texinfo-doc-nonfree isoquery junit-doc libevent-perl libio-async-perl libpoe-perl lrzip libasound2-plugins alsa-utils libatinject-jsr330-api-java-doc nas libdigest-hmac-perl libgssapi-perl libavalon-framework-java-doc libbamtools-doc libxml-sax-expatxs-perl java-virtual-machine libbiojava-java-doc libbiojava4-java-doc liblapack-doc-man liblapack-doc libboost1.62-doc libboost-atomic1.62-dev libboost-chrono1.62-dev libboost-context1.62-dev libboost-coroutine1.62-dev libboost-date-time1.62-dev libboost-exception1.62-dev libboost-fiber1.62-dev libboost-graph1.62-dev libboost-graph-parallel1.62-dev libboost-locale1.62-dev libboost-log1.62-dev libboost-math1.62-dev libboost-mpi1.62-dev libboost-mpi-python1.62-dev libboost-program-options1.62-dev libboost-python1.62-dev libboost-random1.62-dev libboost-serialization1.62-dev libboost-signals1.62-dev libboost-test1.62-dev libboost-thread1.62-dev libboost-timer1.62-dev libboost-type-erasure1.62-dev libboost-wave1.62-dev libboost1.62-tools-dev libmpfrc++-dev libntl-dev bsh glibc-doc libclass-dbi-mysql-perl libclass-dbi-sqlite-perl libclass-dbi-loader-perl colord libcommons-collections3-java-doc libcommons-collections4-java-doc libcommons-beanutils-java libcommons-digester-java libcommons-jxpath-java libcommons-vfs-java libcommons-dbcp-java-doc libgeronimo-jta-1.1-spec-java libcommons-io-java-doc libcommons-jexl2-java-doc libcommons-lang-java-doc libcommons-lang3-java-doc libcommons-logging-java-doc libexcalibur-logkit-java libcommons-net-java-doc cups-common libscalar-properties-perl libnet-daemon-perl libsql-statement-perl libjson-any-perl libmath-base36-perl libmoosex-types-json-perl libmoosex-types-path-class-perl libmoosex-types-perl libdbus-java-doc libdom4j-java-doc libfann-dev libfann-doc libfftw3-bin libfftw3-dev libfreecontact-doc fuse fonts-dustin libgd-tools libgetopt-java-doc glew-utils libiodbc2-dev default-libmysqlclient-dev gmp-doc libgmp10-doc libmpfr-dev gnutls-bin gpm graphicsmagick-dbg gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-doc krb5-user libvisual-0.4-plugins gstreamer1.0-tools libhdf4-doc libhdf4-alt-dev hdf4-tools libhdf5-doc libhsqldb-java-doc libdata-dump-perl libhtml-element-extended-perl libhwloc-contrib-plugins libice-doc icu-doc libdb-file-lock-perl libfile-readbackwards-perl libbcpkix-java libbcprov-java libxml-security-java libitext5-java-doc jackd2 libjargs-java-doc libjaxp1.3-java-gcj libjdom1-java-doc libjline-java-doc libjmol-java-doc libjs-jquery-ui-docs fonts-mathjax-extras libjs-mathjax-doc libjson-simple-doc libjsr305-java-doc liblcms2-utils libdbd-csv-perl liblog-dispatch-filerotate-perl librrds-perl liblog4j1.2-java-doc libcommons-csv-java libconversant-disruptor-java libdisruptor-java libgeronimo-jms-1.1-spec-java libjackson2-dataformat-xml-java libjackson2-dataformat-yaml libjansi-java libjcommander-java libjctools-java libjeromq-java libjpa-2.1-spec-java liblightcouch-java libmongodb-java libwoodstox-java liblog4j2-java-doc libtool-doc libcrypt-ssleay-perl liblzma-doc inkscape libmatthew-java-doc libmbedtls-doc libmojolicious-perl libnanoxml2-java-doc ncurses-doc opus-tools uuid libscalar-number-perl pciutils pcscd proj-bin pulseaudio libqt4-declarative-folderlistmodel libqt4-declarative-gestures libqt4-declarative-particles libqt4-declarative-shaders qt4-qmlviewer firebird-dev libmysqlclient-dev libpq-dev libsqlite0-dev libsqlite3-dev qt4-dev-tools qt4-doc unixodbc-dev qt5-image-formats-plugins qtwayland5 qt4-qtconfig librcsb-core-wrapper0-dbg librcsb-core-wrapper-doc readline-doc librostlab-blast-doc librostlab-doc librsvg2-bin libsasl2-modules-gssapi-mit | libsasl2-modules-gssapi-heimdal libsasl2-modules-ldap libsasl2-modules-otp libsasl2-modules-sql libsaxon-java-doc lm-sensors libsm-doc libnet-jabber-perl libstdc++-6-doc libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libswing-layout-java-doc libtemplate-perl-doc libtemplate-plugin-gd-perl libtemplate-plugin-xml-perl gcj-jdk tre-agrep libcurl4-gnutls-dev libauthen-ntlm-perl libxalan2-java-doc libxsltc-java libxcb-doc libxerces2-java-doc libxerces2-java-gcj libxext-doc libxml-commons-resolver1.1-java-doc libunicode-map8-perl libunicode-string-perl xml-twig-tools libxmlgraphics-commons-java-doc libxom-java-doc libxt-doc libyaml-shell-perl loki-doc lsb m4-doc maffilter-examples mailutils-mh mailutils-doc make-doc less massxpert-doc mcl-doc med-cloud med-data med-dental med-epi med-his med-imaging med-imaging-dev med-laboratory med-oncology med-pharmacy med-physics med-practice med-psychology med-rehabilitation med-tools med-typesetting acacia adun.app amos-assembler amoscmp apollo arachne arb asap axparafit axpcoords bagpipe baitfisher bambus beads bedops biceps big-blast bigsdb bio-tradis biomaj biomaj-watcher bitseq blat blimps-utils blixem blobology btk-core cactus caftools cain canu cap3 ccs cdna-db cinema clonalorigin cluster3 cmap cnvkit coalesce compclust condetri contrafold contralign coot copycat crossbow crux-toolkit cufflinks cytoscape das-proserver dazzle decipher deepnano diamond-aligner e-hive ecell elph embassy-phylip emboss-explorer emmax emperor ensembl est-db estferret estscan euler-sr euler2 exabayes exalt examl excavator fasta fasta3 ffp figaro finex fluctuate forester forge freebayes galaxy gassst gatk gbioseq gbrowse-syn genemark genesplicer genetrack genezilla genographer getdata glimmerhmm gmv grabix grogui haploview hawkeye hexamer hilbertvisgui htqc igv inspect jalview jbrowse jigsaw jstreeview kclust kempbasu lagan lamarc lofreq logomat-m lucy mach-haplotyper mage2tab maker2 malt manta martj maude maxd melting-gui meme mesquite metabit metarep metastudent-data-2 metastudent-data-3 mgltools-cadd mgltools-pmv mgltools-vision migrate minimus mirbase mobyle mobyle-programs mobyle-tutorials modeller molekel mosaik-aligner mpsqed mptp mrs msatfinder mugsy mummergpu mview nanocall nextsv ngila ngsqctoolkit nw-align oases obitools obo-edit oligoarrayaux omegamap openms operondb pal2nal paleomix partigene partitionfinder patman patristic pcma pfaat pftools phagefinder phast phpphylotree phylographer phylophlan phyloviz-core phylowin pipasic plato profit prokka prot4est pscan-tfbs psipred psortb pssh2 pyrophosphate-tools python-orange python-reaper python3-biomaj3 qcumber qiime qtlcart qualimap r-bioc-aroma.light r-bioc-go.db r-bioc-savr r-cran-boolnet r-cran-metamix r-cran-pheatmap r-cran-qqman r-other-apmswapp r-other-valdar-bagphenotype.library raccoon radiant raxml-ng rbs-finder recombine repeatmasker rmblast roadtrips roche454ace2caf roguenarok rose rosetta rsat runcircos-gui sambamba sap science-workflow segemehl seq-gen seqsero sequenceconverter.app sift situs snpeff sparta spice splitstree ssaha strap strap-base tacg taverna taxinspector tetra tide tigr-glimmer-mg tnseq-transit topp trace2dbest tracetuner treebuilder3d treetime tripal trnascan-se tvc twain ugene unc-fish uniprime varmatch varscan vienna-rna vmd x-tandem-pipeline zodiac-zeden bioclipse libbam-dev libbio-eutilities-perl libbiod-dev libforester-java libgff-perl libgtextutils-dev libopenms-dev libpbcopper-dev libqcpp-dev libroadrunner-dev libseqlib-dev libssm-dev libswarm2-dev mgltools-networkeditor mgltools-pybabel octace-bioinfo octave-bioinfo python-bd2k python-biomaj3 python-biotools python-bx python-consensuscore2 python-hyphy python-misopy python-mmtk python-pyfasta python-pyflow python-roadrunner python3-bd2k python3-biopython-sql | python-biopython-sql python3-biotools python3-bx python3-consensuscore2 python3-gffutils python3-hyphy python3-misopy python3-pybedtools python3-pyfasta r-bioc-affy r-bioc-affyio r-bioc-altcdfenvs r-bioc-graph r-bioc-hypergraph r-bioc-makecdfenv r-bioc-preprocesscore r-bioc-rbgl r-bioc-shortread r-bioc-snpstats r-cran-natserv ruby-rgfa rstudio science-statistics menu-l10n gksu | kde-runtime | ktsuss gridengine-client mira-doc mpqc-support mrbayes-doc mustang-testdata octave-doc octave-htmldoc icedtea-8-plugin libnss-mdns fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei fonts-wqy-zenhei fonts-indic keychain libpam-ssh monkeysphere ssh-askpass ed diffutils-doc pbalign-doc doc-base libastro-fits-header-perl libdevel-repl-perl libextutils-f77-perl libfile-map-perl libinline-perl libinline-c-perl libmodule-compile-perl libopengl-perl libpdl-fftw-perl libpdl-graphics-plplot-perl libpgplot-perl perlprimer-doc phylip-doc pinentry-doc libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum postgresql-9.6 postgresql-doc-9.6 probcons-extra profchop profcon metadisorder profphd snapfun pdf-viewer xfig | ivtools-bin | tgif | transfig uclust python-doc libxml2-utils python-astropy-affiliated python-astropy-doc python-beautifulsoup python-biom-format-doc python-mysqldb python-rdflib python-psycopg2 qsopt-ex python-cogent-doc python-configobj-doc python-cryptography-doc python-cryptography-vectors python-cycler-doc texlive-lang-french python-enum34-doc python-fabio-doc python-future-doc python-gtk2-doc python-gmpy-doc python-gobject-2-dbg python-h5py-doc python-genshi python-jinja2-doc python-pybigwig python-lmfit-doc python-lxml-dbg python-lxml-doc python-beaker python3-mako gir1.2-gtk-3.0 python-cairocffi python-excelerator python-gobject python-matplotlib-doc python-tornado python-traits ttf-staypuft python-gmpy2 python-mpmath-doc python-networkx-doc python-coverage python-nose-doc python-numpy-dbg libgle3 python-openssl-doc python-openssl-dbg python-pandas-doc python-patsy-doc python-pbcore-doc python-pexpect-doc python-pil-doc python-pil-dbg python-ply-doc python-pmw-doc subversion python-pytest-xdist pymca python-rfoo python-pygraphviz-doc python-imaging-tk python-pyopencl-dbg python3-pyopencl python-pyparsing-doc python-mock python-qt4-dbg rdkit-doc python-renderpm-dbg python-egenix-mxtexttools python-reportlab-doc python-socks python-rpy-docs python-drmaa python-scipy-doc python-setuptools-doc python-dap python-scikits-optimization python-sklearn-doc python-sortedcontainers-doc python-sphinx-rtd-theme sphinx-doc python-statsmodels-doc python-tables-doc python-netcdf vitables tix python-tk-dbg python-ntlm wx3.0-doc python2.7-doc python3-venv python3-rdflib python3-psycopg2 python-csb-doc python3-examples python3-genshi python-lockfile-doc python3-lxml-dbg python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-pyqt4 python3-sip python3-tornado python3-dev python3-numpy-dbg python3-pil-dbg python3-setuptools python3-renderpm-dbg python3-egenix-mxtexttools python3-cryptography python3-idna python3-openssl python3-socks python-skbio-doc python3-tk-dbg python3.5-venv qtltools-example ess r-doc-info | r-doc-pdf r-cran-runit r-cran-batchjobs r-cran-bbmisc r-cran-rmpi r-cran-rjson r-cran-biasedurn r-cran-statmod r-cran-gss r-cran-maptools r-cran-expm r-cran-ncdf4 r-cran-kernlab r-cran-vcd r-cran-hexbin r-cran-xts r-cran-caret r-cran-rmysql r-cran-polyclip r-cran-mlbench r-cran-lahman r-cran-mapproj r-cran-testit r-cran-png r-cran-formatr r-cran-tikzdevice r-cran-rjags r-cran-mapdata r-cran-abind r-cran-dbitest r-cran-cairo r-cran-rsprng r-cran-rlecuyer r-cran-devtools rasmol-doc raster3d-doc librhino-java-doc openssh-server ri ruby-dev bundler matlab libsbml5-matlab sgml-base-doc sqlite3-doc ssake-examples openssl-blacklist staden-io-lib-examples prolog-el swig-doc swig-examples swig3.0-examples swig3.0-doc isag t-coffee-examples tcl-tclreadline net-tools tcllib-critcl xpdf-reader | pdf-viewer chktex dvidvi fragmaster lacheck latexdiff latexmk purifyeps xindy psutils cm-super dot2tex prerex ruby-tcltk | libtcltk-ruby theseus-examples treetool collectl velvet-example wise-doc nickle cairo-5c xorg-docs-core gvfs-bin xfs | xserver xfonts-cyrillic Recommended packages: predictprotein profphd relion-bin | relion-bin+mpi relion-bin+gui | relion-bin+mpi+gui python-consensuscore2 qtoctave The following NEW packages will be installed: abacas abyss acedb-other acedb-other-belvu acedb-other-dotter adapterremoval adun-core adwaita-icon-theme aegean aevol aglfn alien-hunter alter-sequence-alignment altree amap-align ampliconnoise andi anfo ant ant-optional apache2 apache2-bin apache2-data apache2-utils apbs aragorn arden ariba art-nextgen-simulation-tools artemis artfastqgenerator at-spi2-core atac augustus augustus-data autoconf autodock autodock-vina autogrid automake autopoint autotools-dev axe-demultiplexer ballview bamtools barrnap bc bcftools beagle beast-mcmc beast2-mcmc bedtools beignet-opencl-icd berkeley-express binfmt-support binutils bio-eagle bio-rainbow bioperl bioperl-run biosquid blasr blast2 blends-common blt bowtie bowtie2 boxshade brig bsdmainutils build-essential bwa bzip2 bzip2-doc ca-certificates ca-certificates-java cassiopee cd-hit cdbfasta cdbs cgview chado-utils chimeraslayer circlator circos circos-tools clearcut clonalframe clustalo clustalw clustalx codonw concavity conservation-code cpp cpp-6 crac cron curl cutadapt cython daligner dascrubber datamash dawg dazzdb dbus dbus-java-bin dconf-gsettings-backend dconf-service debhelper default-jre default-jre-headless dh-autoreconf dh-python dh-strip-nondeterminism dialign dialign-tx dialign-tx-data dindel dirmngr discosnp distro-info-data disulfinder disulfinder-data dmidecode dnaclust docutils-common docutils-doc dpkg-dev dssp dvipng dwgsim ea-utils ecopcr edtsurf eigensoft embassy-domainatrix embassy-domalign embassy-domsearch emboss emboss-data emboss-lib exim4 exim4-base exim4-config exim4-daemon-light exonerate f2j fabio-viewer fakeroot falcon fastahack fastaq fastdnaml fastjar fastlink fastml fastqc fastqtl fasttree fastx-toolkit ffindex figtree file filo fitgcp flexbar fml-asm fontconfig fontconfig-config fonts-cabin fonts-circos-symbols fonts-cmu fonts-comfortaa fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu fonts-dejavu-core fonts-dejavu-extra fonts-droid-fallback 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-junicode fonts-lato fonts-liberation fonts-linuxlibertine fonts-lmodern fonts-lobster fonts-lobstertwo fonts-lyx fonts-mathjax fonts-noto-hinted fonts-noto-mono fonts-oflb-asana-math fonts-roboto-hinted fonts-sil-gentium fonts-sil-gentium-basic fonts-sil-gentiumplus fonts-sil-gentiumplus-compact fonts-stix fonts-texgyre fop freecontact freeglut3 fsa fsm-lite g++ g++-6 gamgi garli garlic gasic gawk gbrowse gcc gcc-6 gdpc genometools genometools-common gentle gettext gettext-base gff2aplot gff2ps gfortran gfortran-6 ghemical ghostscript giira glam2 glib-networking glib-networking-common glib-networking-services glpk-utils gnome-icon-theme gnupg gnupg-agent gnupg-l10n gnuplot gnuplot-data gnuplot-qt gnustep-base-common gnustep-base-runtime gnustep-common gnustep-make gobjc gobjc-6 graphlan graphviz grinder groff-base gromacs gromacs-data gsettings-desktop-schemas gsfonts gstreamer1.0-plugins-base gtk-update-icon-cache gubbins guile-2.0-libs gwama harvest-tools hdf5-helpers hdf5-tools hhsuite hhsuite-data hicolor-icon-theme hilive hisat2 hmmer hmmer2 hyphy-common hyphy-mpi hyphygui icc-profiles-free icedtea-netx icedtea-netx-common icu-devtools idba imagemagick imagemagick-6-common imagemagick-6.q16 indelible infernal info install-info intltool-debian ipig ipython ipython3 iqtree iso-codes isympy isympy-common iva jaligner jarwrapper java-common java-wrappers javascript-common jellyfish jemboss jmodeltest jmol junit junit4 kalign khmer khmer-common kineticstools kineticstools-data king-probe kissplice kmc kmer kraken krb5-locales ksh lambda-align laptop-detect last-align leaff lefse libace-perl libaec-dev libaec0 libai-fann-perl libalgorithm-c3-perl libalgorithm-diff-perl libalgorithm-diff-xs-perl libalgorithm-merge-perl libalgorithm-munkres-perl libamd2 libanfo0 libann0 libanyevent-cachedns-perl libanyevent-http-perl libanyevent-perl libapache-dbi-perl libapache-logformat-compiler-perl libapache-pom-java libapache2-mod-perl2 libapache2-reload-perl libapparmor1 libappconfig-perl libapr1 libaprutil1 libaprutil1-dbd-sqlite3 libaprutil1-ldap libarchive-zip-perl libarchive13 libargtable2-0 libarmadillo7 libarpack2 libarray-compare-perl libarray-utils-perl libart-2.0-2 libasa-perl libasan3 libasound2 libasound2-data libassuan0 libasync-interrupt-perl libasyncns0 libatinject-jsr330-api-java libatk-bridge2.0-0 libatk-wrapper-java libatk-wrapper-java-jni libatk1.0-0 libatk1.0-data libatlas3-base libatomic1 libatspi2.0-0 libaudio2 libauthen-sasl-perl libavahi-client3 libavahi-common-data libavahi-common3 libavalon-framework-java libb-hooks-endofscope-perl libball1.4 libball1.4-data libballview1.4 libbambamc-dev libbambamc0 libbamtools-dev libbamtools2.4.0 libbatik-java libbio-asn1-entrezgene-perl libbio-chado-schema-perl libbio-coordinate-perl libbio-das-lite-perl libbio-graphics-perl libbio-mage-perl libbio-mage-utils-perl libbio-perl-perl libbio-perl-run-perl libbio-primerdesigner-perl libbio-scf-perl libbiococoa-dev libbiococoa2 libbiojava-java libbiojava1.7-java libbiojava4-java libbiojava4.0-java libbit-vector-perl libblas-common libblas-dev libblas3 libblasr libblasr-dev libblosc1 libboost-atomic1.62.0 libboost-chrono1.62.0 libboost-date-time1.62.0 libboost-filesystem1.62-dev libboost-filesystem1.62.0 libboost-iostreams1.62-dev libboost-iostreams1.62.0 libboost-mpi1.62.0 libboost-program-options1.62.0 libboost-python1.62.0 libboost-regex1.62-dev libboost-regex1.62.0 libboost-serialization1.62.0 libboost-system1.62-dev libboost-system1.62.0 libboost-thread1.62.0 libboost-timer1.62.0 libboost1.62-dev libbpp-core-dev libbpp-core2v5 libbpp-phyl-dev libbpp-phyl-omics-dev libbpp-phyl-omics1v5 libbpp-phyl9v5 libbpp-popgen-dev libbpp-popgen6v5 libbpp-qt-dev libbpp-qt1v5 libbpp-raa-dev libbpp-raa1v5 libbpp-seq-dev libbpp-seq-omics-dev libbpp-seq-omics1v5 libbpp-seq9v5 libbsd-resource-perl libbsd0 libbsf-java libbytecode-java libbz2-dev libc-dev-bin libc6-dev libcache-cache-perl libcairo-gobject2 libcairo2 libcamd2 libcap2 libcap2-bin libcapnp-0.5.3 libcapture-tiny-perl libcarp-always-perl libcarp-clan-perl libcassie1v5 libcbf0 libcc1-0 libccolamd2 libcdparanoia0 libcdt5 libcfitsio5 libcgi-compile-perl libcgi-emulate-psgi-perl libcgi-fast-perl libcgi-pm-perl libcgi-session-perl libcgraph6 libchado-perl libcholmod3 libcilkrts5 libclass-accessor-chained-perl libclass-accessor-grouped-perl libclass-accessor-perl libclass-autoloadcan-perl libclass-autouse-perl libclass-base-perl libclass-c3-componentised-perl libclass-c3-perl libclass-c3-xs-perl libclass-data-inheritable-perl libclass-dbi-abstractsearch-perl libclass-dbi-pager-perl libclass-dbi-perl libclass-dbi-pg-perl libclass-inspector-perl libclass-load-perl libclass-load-xs-perl libclass-makemethods-perl libclass-method-modifiers-perl libclass-tiny-perl libclass-trigger-perl libclass-xsaccessor-perl libclone-perl libclone-pp-perl libcneartree5 libcolamd2 libcolord2 libcolt-free-java libcommon-sense-perl libcommons-cli-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-configuration-java libcommons-dbcp-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-lang3-java libcommons-logging-java libcommons-math-java libcommons-math3-java libcommons-net-java libcommons-parent-java libcommons-pool-java libconcurrent-java libconfig-any-perl libconfig-general-perl libconfig-inifiles-perl libconfig-tiny-perl libconsensuscore-dev libcontext-preserve-perl libconvert-binary-c-perl libconvert-binhex-perl libcookie-baker-perl libcpan-changes-perl libcqrlib2 libcroco3 libcrypt-rc4-perl libcrypto++6 libcups2 libcupsfilters1 libcupsimage2 libcurl3 libcurl3-gnutls libcvector2 libcxsparse3 libdata-compare-perl libdata-dumper-concise-perl libdata-dumper-simple-perl libdata-optlist-perl libdata-page-perl libdata-perl-perl libdata-section-perl libdata-stag-perl libdata-uuid-libuuid-perl libdate-calc-perl libdate-calc-xs-perl libdate-manip-perl libdatrie1 libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl libdbicx-testdatabase-perl libdbix-class-perl libdbix-class-tree-nestedset-perl libdbix-contextualfetch-perl libdbix-dbschema-perl libdbix-dbstag-perl libdbus-1-3 libdbus-java libdconf1 libdevel-argnames-perl libdevel-caller-perl libdevel-globaldestruction-perl libdevel-lexalias-perl libdevel-overloadinfo-perl libdevel-partialdump-perl libdevel-stacktrace-ashtml-perl libdevel-stacktrace-perl libdevel-symdump-perl libdigest-md5-file-perl libdigest-perl-md5-perl libdisorder-dev libdisorder0 libdist-checkconflicts-perl libdivsufsort-dev libdivsufsort3 libdjvulibre-text libdjvulibre21 libdom4j-java libdouble-conversion1 libdpkg-perl libdrm-amdgpu1 libdrm-dev libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libdsdp-5.8gf libedit2 libegl1-mesa libelf1 libelk0 libemail-date-format-perl libencode-locale-perl libenv-path-perl libepoxy0 liberfa1 liberror-perl libev-perl libeval-closure-perl libevdev2 libexception-class-perl libexpat1 libexpat1-dev libexporter-lite-perl libexporter-tiny-perl libf2j-java libfabric1 libfakeroot libfann2 libfast5-dev libfastahack-dev libfastahack0 libfastutil-java libfcgi-perl libfcgi-procmanager-perl libffi6 libffindex0 libffindex0-dev libfftw3-double3 libfftw3-single3 libfile-basedir-perl libfile-chdir-perl libfile-copy-link-perl libfile-desktopentry-perl libfile-fcntllock-perl libfile-find-rule-perl libfile-grep-perl libfile-homedir-perl libfile-listing-perl libfile-mimeinfo-perl libfile-pushd-perl libfile-sharedir-perl libfile-slurp-perl libfile-slurp-tiny-perl libfile-slurper-perl libfile-stripnondeterminism-perl libfile-which-perl libfilesys-notify-simple-perl libfindbin-libs-perl libflac8 libfltk-gl1.3 libfltk-images1.3 libfltk1.3 libfml-dev libfml0 libfont-afm-perl libfont-ttf-perl libfontbox-java libfontconfig1 libfontconfig1-dev libfontenc1 libfop-java libfreecontact-dev libfreecontact-perl libfreecontact0v5 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 libfreetype6-dev libfreezethaw-perl libfribidi0 libfuse2 libg20 libgail-common libgail18 libgbm1 libgc1c2 libgcc-6-dev libgd-graph-perl libgd-perl libgd-svg-perl 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r-cran-nmf r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-optparse r-cran-permute r-cran-phangorn r-cran-phylobase r-cran-pkgkitten r-cran-pkgmaker r-cran-plyr r-cran-polspline r-cran-praise r-cran-prettyunits r-cran-progress r-cran-pscbs r-cran-pvclust r-cran-qtl r-cran-quadprog r-cran-quantreg r-cran-r.cache r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6 r-cran-randomforest r-cran-raster r-cran-rcolorbrewer r-cran-rcpp r-cran-rcppgsl r-cran-rcurl r-cran-readxl r-cran-registry r-cran-rentrez r-cran-reshape r-cran-reshape2 r-cran-rgl r-cran-ritis r-cran-rlumshiny r-cran-rms r-cran-rncl r-cran-rnexml r-cran-rngtools r-cran-rocr r-cran-rotl r-cran-rpart r-cran-rredlist r-cran-rsqlite r-cran-sandwich r-cran-scales r-cran-scatterd3 r-cran-segmented r-cran-seqinr r-cran-shape r-cran-shiny r-cran-shinybs r-cran-snow r-cran-solrium r-cran-sourcetools r-cran-sp r-cran-spam r-cran-sparsem r-cran-spatial r-cran-spdep r-cran-stringi r-cran-stringr r-cran-survival r-cran-taxize r-cran-testthat r-cran-th.data r-cran-tibble r-cran-tidyr r-cran-treescape r-cran-uuid r-cran-vegan r-cran-viridis r-cran-xml r-cran-xml2 r-cran-xtable r-cran-yaml r-cran-zoo r-doc-html r-mathlib r-other-mott-happy.hbrem r-recommended rake rambo-k rapmap rasmol raster3d rate4site raxml ray rdkit-data rdp-alignment rdp-classifier rdp-classifier-doc rdp-readseq readline-common readseq reapr rename repeatmasker-recon reprof rhino rna-star rnahybrid roary rsem rsync rtax ruby ruby-bio ruby-crb-blast ruby-did-you-mean ruby-facade ruby-fixwhich ruby-minitest ruby-net-telnet ruby-pathname2 ruby-power-assert ruby-test-unit ruby-threach ruby-trollop ruby2.3 rubygems-integration saint salmon samtools sbmltoolbox scrm scythe seaview seer seqan-apps seqan-dev seqprep seqtk sga sgml-base shared-mime-info sibsim4 sickle sigma-align sim4 sim4db smalt smithwaterman smrtanalysis snap snap-aligner sniffles snp-sites snpomatic soapdenovo soapdenovo2 sortmerna spaced spades sphinx-common sphinx-rtd-theme-common sprai spread-phy sqlite3 squizz sra-toolkit srst2 ssake ssl-cert sspace ssw-align stacks staden staden-common staden-io-lib-utils subread suitename sumaclust sumatra sumtrees surankco swarm swi-prolog swi-prolog-nox swi-prolog-x swig swig3.0 sysstat t-coffee t1utils tabix tantan tasksel tasksel-data tcl tcl8.6 tcllib tcpd tex-common tex-gyre texinfo 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-extra 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-pictures texlive-pictures-doc texlive-pstricks texlive-pstricks-doc texlive-science texlive-science-doc theseus tigr-glimmer time tipa tk tk8.6 tk8.6-blt2.5 tklib tm-align tophat toppred transdecoder transrate-tools transtermhp tree-puzzle tree-puzzle-doc treeview treeviewx trimmomatic trinityrnaseq trinityrnaseq-examples ttf-adf-accanthis ttf-adf-gillius ttf-adf-universalis ttf-bitstream-vera ttf-dejavu ttf-dejavu-core ttf-dejavu-extra ttf-liberation tzdata uc-echo ucf uil unzip varna vcftools velvet velvetoptimiser vsearch wigeon wise wise-data x11-common x11-utils x11-xserver-utils x11proto-core-dev x11proto-damage-dev x11proto-dri2-dev x11proto-fixes-dev x11proto-gl-dev x11proto-input-dev x11proto-kb-dev x11proto-render-dev x11proto-xext-dev x11proto-xf86vidmode-dev xauth xbitmaps xdg-user-dirs xdg-utils xfonts-100dpi xfonts-encodings xfonts-utils xkb-data xml-core xorg-sgml-doctools xsltproc xterm xtrans-dev xz-utils zalign zip zlib1g-dev 0 upgraded, 2380 newly installed, 0 to remove and 0 not upgraded. Need to get 3733 MB of archives. After this operation, 10.9 GB of additional disk space will be used. Get:1 http://deb.debian.org/debian stretch/main amd64 install-info amd64 6.3.0.dfsg.1-1+b2 [311 kB] Get:2 http://deb.debian.org/debian stretch/main amd64 lsb-base all 9.20161125 [27.9 kB] Get:3 http://deb.debian.org/debian stretch/main amd64 cron amd64 3.0pl1-128+deb9u1 [95.4 kB] Get:4 http://deb.debian.org/debian stretch/main amd64 liblocale-gettext-perl amd64 1.07-3+b1 [18.7 kB] Get:5 http://deb.debian.org/debian stretch/main amd64 tasksel-data all 3.39 [18.1 kB] Get:6 http://deb.debian.org/debian stretch/main amd64 tasksel all 3.39 [94.6 kB] Get:7 http://deb.debian.org/debian stretch/main amd64 groff-base amd64 1.22.3-9 [1160 kB] Get:8 http://deb.debian.org/debian stretch/main amd64 libbsd0 amd64 0.8.3-1 [83.0 kB] Get:9 http://deb.debian.org/debian stretch/main amd64 libncurses5 amd64 6.0+20161126-1+deb9u2 [93.4 kB] Get:10 http://deb.debian.org/debian stretch/main amd64 bsdmainutils amd64 9.0.12+nmu1 [186 kB] Get:11 http://deb.debian.org/debian stretch/main amd64 libgdbm3 amd64 1.8.3-14 [30.0 kB] Get:12 http://deb.debian.org/debian stretch/main amd64 libpipeline1 amd64 1.4.1-2 [27.6 kB] Get:13 http://deb.debian.org/debian stretch/main amd64 man-db amd64 2.7.6.1-2 [1044 kB] Get:14 http://deb.debian.org/debian stretch/main amd64 perl-modules-5.24 all 5.24.1-3+deb9u7 [2723 kB] Get:15 http://deb.debian.org/debian stretch/main amd64 libperl5.24 amd64 5.24.1-3+deb9u7 [3527 kB] Get:16 http://deb.debian.org/debian stretch/main amd64 perl amd64 5.24.1-3+deb9u7 [218 kB] Get:17 http://deb.debian.org/debian stretch/main amd64 libpython2.7-minimal amd64 2.7.13-2+deb9u3 [389 kB] Get:18 http://deb.debian.org/debian stretch/main amd64 python2.7-minimal amd64 2.7.13-2+deb9u3 [1382 kB] Get:19 http://deb.debian.org/debian stretch/main amd64 python-minimal amd64 2.7.13-2 [40.5 kB] Get:20 http://deb.debian.org/debian stretch/main amd64 mime-support all 3.60 [36.7 kB] Get:21 http://deb.debian.org/debian stretch/main amd64 libexpat1 amd64 2.2.0-2+deb9u3 [83.7 kB] Get:22 http://deb.debian.org/debian stretch/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:23 http://deb.debian.org/debian stretch/main amd64 readline-common all 7.0-3 [70.4 kB] Get:24 http://deb.debian.org/debian stretch/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:25 http://deb.debian.org/debian stretch/main amd64 libsqlite3-0 amd64 3.16.2-5+deb9u1 [572 kB] Get:26 http://deb.debian.org/debian stretch/main amd64 libssl1.1 amd64 1.1.0l-1~deb9u1 [1358 kB] Get:27 http://deb.debian.org/debian stretch/main amd64 libpython2.7-stdlib amd64 2.7.13-2+deb9u3 [1897 kB] Get:28 http://deb.debian.org/debian stretch/main amd64 python2.7 amd64 2.7.13-2+deb9u3 [285 kB] Get:29 http://deb.debian.org/debian stretch/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:30 http://deb.debian.org/debian stretch/main amd64 python amd64 2.7.13-2 [154 kB] Get:31 http://deb.debian.org/debian stretch/main amd64 libprocps6 amd64 2:3.3.12-3+deb9u1 [58.5 kB] Get:32 http://deb.debian.org/debian stretch/main amd64 procps amd64 2:3.3.12-3+deb9u1 [250 kB] Get:33 http://deb.debian.org/debian stretch/main amd64 libapr1 amd64 1.5.2-5 [96.6 kB] Get:34 http://deb.debian.org/debian stretch/main amd64 libaprutil1 amd64 1.5.4-3 [85.8 kB] Get:35 http://deb.debian.org/debian stretch/main amd64 libaprutil1-dbd-sqlite3 amd64 1.5.4-3 [19.3 kB] Get:36 http://deb.debian.org/debian stretch/main amd64 libgmp10 amd64 2:6.1.2+dfsg-1 [253 kB] Get:37 http://deb.debian.org/debian stretch/main amd64 libnettle6 amd64 3.3-1+b2 [192 kB] Get:38 http://deb.debian.org/debian stretch/main amd64 libhogweed4 amd64 3.3-1+b2 [136 kB] Get:39 http://deb.debian.org/debian stretch/main amd64 libidn11 amd64 1.33-1+deb9u1 [115 kB] Get:40 http://deb.debian.org/debian stretch/main amd64 libp11-kit0 amd64 0.23.3-2 [111 kB] Get:41 http://deb.debian.org/debian stretch/main amd64 libtasn1-6 amd64 4.10-1.1+deb9u1 [50.6 kB] Get:42 http://deb.debian.org/debian stretch/main amd64 libgnutls30 amd64 3.5.8-5+deb9u5 [896 kB] Get:43 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [68.4 kB] Get:44 http://deb.debian.org/debian stretch/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [105 kB] Get:45 http://deb.debian.org/debian stretch/main amd64 libldap-common all 2.4.44+dfsg-5+deb9u4 [85.7 kB] Get:46 http://deb.debian.org/debian stretch/main amd64 libldap-2.4-2 amd64 2.4.44+dfsg-5+deb9u4 [219 kB] Get:47 http://deb.debian.org/debian stretch/main amd64 libaprutil1-ldap amd64 1.5.4-3 [17.4 kB] Get:48 http://deb.debian.org/debian stretch/main amd64 liblua5.2-0 amd64 5.2.4-1.1+b2 [110 kB] Get:49 http://deb.debian.org/debian stretch/main amd64 libnghttp2-14 amd64 1.18.1-1+deb9u1 [79.2 kB] Get:50 http://deb.debian.org/debian stretch/main amd64 libssl1.0.2 amd64 1.0.2u-1~deb9u1 [1304 kB] Get:51 http://deb.debian.org/debian stretch/main amd64 libicu57 amd64 57.1-6+deb9u4 [7699 kB] Get:52 http://deb.debian.org/debian stretch/main amd64 libxml2 amd64 2.9.4+dfsg1-2.2+deb9u2 [920 kB] Get:53 http://deb.debian.org/debian stretch/main amd64 apache2-bin amd64 2.4.25-3+deb9u9 [1185 kB] Get:54 http://deb.debian.org/debian stretch/main amd64 apache2-utils amd64 2.4.25-3+deb9u9 [218 kB] Get:55 http://deb.debian.org/debian stretch/main amd64 apache2-data all 2.4.25-3+deb9u9 [162 kB] Get:56 http://deb.debian.org/debian stretch/main amd64 apache2 amd64 2.4.25-3+deb9u9 [237 kB] Get:57 http://deb.debian.org/debian stretch/main amd64 libpng16-16 amd64 1.6.28-1+deb9u1 [280 kB] Get:58 http://deb.debian.org/debian stretch/main amd64 libfreetype6 amd64 2.6.3-3.2+deb9u1 [438 kB] Get:59 http://deb.debian.org/debian stretch/main amd64 ucf all 3.0036 [70.2 kB] Get:60 http://deb.debian.org/debian stretch/main amd64 fonts-dejavu-core all 2.37-1 [1068 kB] Get:61 http://deb.debian.org/debian stretch/main amd64 ttf-bitstream-vera all 1.10-8 [352 kB] Get:62 http://deb.debian.org/debian stretch/main amd64 fonts-liberation all 1:1.07.4-2 [827 kB] Get:63 http://deb.debian.org/debian stretch/main amd64 fontconfig-config all 2.11.0-6.7 [271 kB] Get:64 http://deb.debian.org/debian stretch/main amd64 libfontconfig1 amd64 2.11.0-6.7+b1 [331 kB] Get:65 http://deb.debian.org/debian stretch/main amd64 fontconfig amd64 2.11.0-6.7+b1 [404 kB] Get:66 http://deb.debian.org/debian stretch/main amd64 fonts-droid-fallback all 1:6.0.1r16-1.1 [1807 kB] Get:67 http://deb.debian.org/debian stretch/main amd64 fonts-lato all 2.0-1 [2684 kB] Get:68 http://deb.debian.org/debian stretch/main amd64 libmpfr4 amd64 3.1.5-1 [556 kB] Get:69 http://deb.debian.org/debian stretch/main amd64 libsigsegv2 amd64 2.10-5 [28.9 kB] Get:70 http://deb.debian.org/debian stretch/main amd64 gawk amd64 1:4.1.4+dfsg-1 [571 kB] Get:71 http://deb.debian.org/debian stretch/main amd64 libart-2.0-2 amd64 2.3.21-2 [72.7 kB] Get:72 http://deb.debian.org/debian stretch/main amd64 libxau6 amd64 1:1.0.8-1 [20.7 kB] Get:73 http://deb.debian.org/debian stretch/main amd64 x11-common all 1:7.7+19 [251 kB] Get:74 http://deb.debian.org/debian stretch/main amd64 libice6 amd64 2:1.0.9-2 [58.7 kB] Get:75 http://deb.debian.org/debian stretch/main amd64 libsm6 amd64 2:1.2.2-1+b3 [33.3 kB] Get:76 http://deb.debian.org/debian stretch/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:77 http://deb.debian.org/debian stretch/main amd64 libxcb1 amd64 1.12-1 [133 kB] Get:78 http://deb.debian.org/debian stretch/main amd64 libx11-data all 2:1.6.4-3+deb9u1 [287 kB] Get:79 http://deb.debian.org/debian stretch/main amd64 libx11-6 amd64 2:1.6.4-3+deb9u1 [748 kB] Get:80 http://deb.debian.org/debian stretch/main amd64 libxt6 amd64 1:1.1.5-1 [188 kB] Get:81 http://deb.debian.org/debian stretch/main amd64 libaudio2 amd64 1.9.4-5+b1 [79.9 kB] Get:82 http://deb.debian.org/debian stretch/main amd64 libcdparanoia0 amd64 3.10.2+debian-11 [56.6 kB] Get:83 http://deb.debian.org/debian stretch/main amd64 libglib2.0-0 amd64 2.50.3-2+deb9u2 [2692 kB] Get:84 http://deb.debian.org/debian stretch/main amd64 libatk1.0-data all 2.22.0-1 [172 kB] Get:85 http://deb.debian.org/debian stretch/main amd64 libatk1.0-0 amd64 2.22.0-1 [78.4 kB] Get:86 http://deb.debian.org/debian stretch/main amd64 libpixman-1-0 amd64 0.34.0-1 [530 kB] Get:87 http://deb.debian.org/debian stretch/main amd64 libxcb-render0 amd64 1.12-1 [105 kB] Get:88 http://deb.debian.org/debian stretch/main amd64 libxcb-shm0 amd64 1.12-1 [95.9 kB] Get:89 http://deb.debian.org/debian stretch/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get:90 http://deb.debian.org/debian stretch/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:91 http://deb.debian.org/debian stretch/main amd64 libcairo2 amd64 1.14.8-1 [771 kB] Get:92 http://deb.debian.org/debian stretch/main amd64 libjpeg62-turbo amd64 1:1.5.1-2 [134 kB] Get:93 http://deb.debian.org/debian stretch/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:94 http://deb.debian.org/debian stretch/main amd64 libtiff5 amd64 4.0.8-2+deb9u5 [239 kB] Get:95 http://deb.debian.org/debian stretch/main amd64 shared-mime-info amd64 1.8-1+deb9u1 [731 kB] Get:96 http://deb.debian.org/debian stretch/main amd64 libgdk-pixbuf2.0-common all 2.36.5-2+deb9u2 [311 kB] Get:97 http://deb.debian.org/debian stretch/main amd64 libgdk-pixbuf2.0-0 amd64 2.36.5-2+deb9u2 [170 kB] Get:98 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-common all 2.24.31-2 [2693 kB] Get:99 http://deb.debian.org/debian stretch/main amd64 libavahi-common-data amd64 0.6.32-2 [118 kB] Get:100 http://deb.debian.org/debian stretch/main amd64 libavahi-common3 amd64 0.6.32-2 [52.0 kB] Get:101 http://deb.debian.org/debian stretch/main amd64 libdbus-1-3 amd64 1.10.32-0+deb9u1 [196 kB] Get:102 http://deb.debian.org/debian stretch/main amd64 libavahi-client3 amd64 0.6.32-2 [55.3 kB] Get:103 http://deb.debian.org/debian stretch/main amd64 libkeyutils1 amd64 1.5.9-9 [12.4 kB] Get:104 http://deb.debian.org/debian stretch/main amd64 libkrb5support0 amd64 1.15-1+deb9u1 [61.9 kB] Get:105 http://deb.debian.org/debian stretch/main amd64 libk5crypto3 amd64 1.15-1+deb9u1 [119 kB] Get:106 http://deb.debian.org/debian stretch/main amd64 libkrb5-3 amd64 1.15-1+deb9u1 [311 kB] Get:107 http://deb.debian.org/debian stretch/main amd64 libgssapi-krb5-2 amd64 1.15-1+deb9u1 [155 kB] Get:108 http://deb.debian.org/debian stretch/main amd64 libcups2 amd64 2.2.1-8+deb9u6 [307 kB] Get:109 http://deb.debian.org/debian stretch/main amd64 libthai-data all 0.1.26-1 [166 kB] Get:110 http://deb.debian.org/debian stretch/main amd64 libdatrie1 amd64 0.2.10-4+b1 [36.4 kB] Get:111 http://deb.debian.org/debian stretch/main amd64 libthai0 amd64 0.1.26-1 [52.1 kB] Get:112 http://deb.debian.org/debian stretch/main amd64 libpango-1.0-0 amd64 1.40.5-1 [320 kB] Get:113 http://deb.debian.org/debian stretch/main amd64 libgraphite2-3 amd64 1.3.10-1 [84.2 kB] Get:114 http://deb.debian.org/debian stretch/main amd64 libharfbuzz0b amd64 1.4.2-1 [671 kB] Get:115 http://deb.debian.org/debian stretch/main amd64 libpangoft2-1.0-0 amd64 1.40.5-1 [205 kB] Get:116 http://deb.debian.org/debian stretch/main amd64 libpangocairo-1.0-0 amd64 1.40.5-1 [193 kB] Get:117 http://deb.debian.org/debian stretch/main amd64 libxcomposite1 amd64 1:0.4.4-2 [16.5 kB] Get:118 http://deb.debian.org/debian stretch/main amd64 libxfixes3 amd64 1:5.0.3-1 [21.9 kB] Get:119 http://deb.debian.org/debian stretch/main amd64 libxcursor1 amd64 1:1.1.14-1+deb9u2 [34.9 kB] Get:120 http://deb.debian.org/debian stretch/main amd64 libxdamage1 amd64 1:1.1.4-2+b3 [14.5 kB] Get:121 http://deb.debian.org/debian stretch/main amd64 libxi6 amd64 2:1.7.9-1 [82.6 kB] Get:122 http://deb.debian.org/debian stretch/main amd64 libxinerama1 amd64 2:1.1.3-1+b3 [16.7 kB] Get:123 http://deb.debian.org/debian stretch/main amd64 libxrandr2 amd64 2:1.5.1-1 [37.5 kB] Get:124 http://deb.debian.org/debian stretch/main amd64 hicolor-icon-theme all 0.15-1 [9550 B] Get:125 http://deb.debian.org/debian stretch/main amd64 gtk-update-icon-cache amd64 3.22.11-1 [76.6 kB] Get:126 http://deb.debian.org/debian stretch/main amd64 libcroco3 amd64 0.6.11-3 [143 kB] Get:127 http://deb.debian.org/debian stretch/main amd64 librsvg2-2 amd64 2.40.16-1+b1 [281 kB] Get:128 http://deb.debian.org/debian stretch/main amd64 librsvg2-common amd64 2.40.16-1+b1 [194 kB] Get:129 http://deb.debian.org/debian stretch/main amd64 gnome-icon-theme all 3.12.0-2 [9890 kB] Get:130 http://deb.debian.org/debian stretch/main amd64 adwaita-icon-theme all 3.22.0-1+deb9u1 [11.5 MB] Get:131 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-0 amd64 2.24.31-2 [1800 kB] Get:132 http://deb.debian.org/debian stretch/main amd64 libglade2-0 amd64 1:2.6.4-2 [81.8 kB] Get:133 http://deb.debian.org/debian stretch/main amd64 liblqr-1-0 amd64 0.4.2-2+b2 [24.8 kB] Get:134 http://deb.debian.org/debian stretch/main amd64 libgomp1 amd64 6.3.0-18+deb9u1 [73.3 kB] Get:135 http://deb.debian.org/debian stretch/main amd64 libfftw3-double3 amd64 3.3.5-3 [731 kB] Get:136 http://deb.debian.org/debian stretch/main amd64 liblcms2-2 amd64 2.8-4+deb9u1 [143 kB] Get:137 http://deb.debian.org/debian stretch/main amd64 libltdl7 amd64 2.4.6-2 [389 kB] Get:138 http://deb.debian.org/debian stretch/main amd64 libopenjp2-7 amd64 2.1.2-1.1+deb9u4 [122 kB] Get:139 http://deb.debian.org/debian stretch/main amd64 imagemagick-6-common all 8:6.9.7.4+dfsg-11+deb9u8 [185 kB] Get:140 http://deb.debian.org/debian stretch/main amd64 libmagickcore-6.q16-3 amd64 8:6.9.7.4+dfsg-11+deb9u8 [1743 kB] Get:141 http://deb.debian.org/debian stretch/main amd64 libmagickwand-6.q16-3 amd64 8:6.9.7.4+dfsg-11+deb9u8 [423 kB] Get:142 http://deb.debian.org/debian stretch/main amd64 libmotif-common all 2.3.4-13 [28.4 kB] Get:143 http://deb.debian.org/debian stretch/main amd64 libxft2 amd64 2.3.2-1+b2 [56.5 kB] Get:144 http://deb.debian.org/debian stretch/main amd64 libxmu6 amd64 2:1.1.2-2 [60.3 kB] Get:145 http://deb.debian.org/debian stretch/main amd64 libxm4 amd64 2.3.4-13 [1017 kB] Get:146 http://deb.debian.org/debian stretch/main amd64 libmrm4 amd64 2.3.4-13 [76.7 kB] Get:147 http://deb.debian.org/debian stretch/main amd64 libogg0 amd64 1.3.2-1 [19.9 kB] Get:148 http://deb.debian.org/debian stretch/main amd64 libpcrecpp0v5 amd64 2:8.39-3 [151 kB] Get:149 http://deb.debian.org/debian stretch/main amd64 libdouble-conversion1 amd64 2.0.1-4 [33.7 kB] Get:150 http://deb.debian.org/debian stretch/main amd64 libpcre16-3 amd64 2:8.39-3 [258 kB] Get:151 http://deb.debian.org/debian stretch/main amd64 libqt5core5a amd64 5.7.1+dfsg-3+deb9u2 [1839 kB] Get:152 http://deb.debian.org/debian stretch/main amd64 libdrm2 amd64 2.4.74-1 [36.2 kB] Get:153 http://deb.debian.org/debian stretch/main amd64 libwayland-client0 amd64 1.12.0-1+deb9u1 [25.1 kB] Get:154 http://deb.debian.org/debian stretch/main amd64 libwayland-server0 amd64 1.12.0-1+deb9u1 [30.6 kB] Get:155 http://deb.debian.org/debian stretch/main amd64 libgbm1 amd64 13.0.6-1+b2 [59.2 kB] Get:156 http://deb.debian.org/debian stretch/main amd64 libx11-xcb1 amd64 2:1.6.4-3+deb9u1 [183 kB] Get:157 http://deb.debian.org/debian stretch/main amd64 libxcb-dri2-0 amd64 1.12-1 [97.2 kB] Get:158 http://deb.debian.org/debian stretch/main amd64 libxcb-dri3-0 amd64 1.12-1 [95.6 kB] Get:159 http://deb.debian.org/debian stretch/main amd64 libxcb-present0 amd64 1.12-1 [95.8 kB] Get:160 http://deb.debian.org/debian stretch/main amd64 libxcb-sync1 amd64 1.12-1 [99.2 kB] Get:161 http://deb.debian.org/debian stretch/main amd64 libxcb-xfixes0 amd64 1.12-1 [99.6 kB] Get:162 http://deb.debian.org/debian stretch/main amd64 libxshmfence1 amd64 1.2-1+b2 [7922 B] Get:163 http://deb.debian.org/debian stretch/main amd64 libegl1-mesa amd64 13.0.6-1+b2 [112 kB] Get:164 http://deb.debian.org/debian stretch/main amd64 libglapi-mesa amd64 13.0.6-1+b2 [58.9 kB] Get:165 http://deb.debian.org/debian stretch/main amd64 libxcb-glx0 amd64 1.12-1 [113 kB] Get:166 http://deb.debian.org/debian stretch/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:167 http://deb.debian.org/debian stretch/main amd64 libgl1-mesa-glx amd64 13.0.6-1+b2 [167 kB] Get:168 http://deb.debian.org/debian stretch/main amd64 libevdev2 amd64 1.5.6+dfsg-1 [30.0 kB] Get:169 http://deb.debian.org/debian stretch/main amd64 libmtdev1 amd64 1.1.5-1+b1 [22.3 kB] Get:170 http://deb.debian.org/debian stretch/main amd64 libgudev-1.0-0 amd64 230-3 [12.9 kB] Get:171 http://deb.debian.org/debian stretch/main amd64 libwacom-common all 0.22-1 [31.3 kB] Get:172 http://deb.debian.org/debian stretch/main amd64 libwacom2 amd64 0.22-1+b1 [18.0 kB] Get:173 http://deb.debian.org/debian stretch/main amd64 libinput-bin amd64 1.6.3-1 [11.1 kB] Get:174 http://deb.debian.org/debian stretch/main amd64 libinput10 amd64 1.6.3-1 [75.7 kB] Get:175 http://deb.debian.org/debian stretch/main amd64 libqt5dbus5 amd64 5.7.1+dfsg-3+deb9u2 [217 kB] Get:176 http://deb.debian.org/debian stretch/main amd64 libproxy1v5 amd64 0.4.14-2 [57.4 kB] Get:177 http://deb.debian.org/debian stretch/main amd64 libqt5network5 amd64 5.7.1+dfsg-3+deb9u2 [593 kB] Get:178 http://deb.debian.org/debian stretch/main amd64 libxcb-icccm4 amd64 0.4.1-1 [27.0 kB] Get:179 http://deb.debian.org/debian stretch/main amd64 libxcb-util0 amd64 0.3.8-3+b2 [23.0 kB] Get:180 http://deb.debian.org/debian stretch/main amd64 libxcb-image0 amd64 0.4.0-1+b2 [24.4 kB] Get:181 http://deb.debian.org/debian stretch/main amd64 libxcb-keysyms1 amd64 0.4.0-1+b2 [16.4 kB] Get:182 http://deb.debian.org/debian stretch/main amd64 libxcb-randr0 amd64 1.12-1 [107 kB] Get:183 http://deb.debian.org/debian stretch/main amd64 libxcb-render-util0 amd64 0.3.9-1 [18.0 kB] Get:184 http://deb.debian.org/debian stretch/main amd64 libxcb-shape0 amd64 1.12-1 [96.2 kB] Get:185 http://deb.debian.org/debian stretch/main amd64 libxcb-xinerama0 amd64 1.12-1 [95.5 kB] Get:186 http://deb.debian.org/debian stretch/main amd64 libxcb-xkb1 amd64 1.12-1 [120 kB] Get:187 http://deb.debian.org/debian stretch/main amd64 xkb-data all 2.19-1+deb9u1 [650 kB] Get:188 http://deb.debian.org/debian stretch/main amd64 libxkbcommon0 amd64 0.7.1-2~deb9u1 [122 kB] Get:189 http://deb.debian.org/debian stretch/main amd64 libxkbcommon-x11-0 amd64 0.7.1-2~deb9u1 [39.1 kB] Get:190 http://deb.debian.org/debian stretch/main amd64 libqt5gui5 amd64 5.7.1+dfsg-3+deb9u2 [2449 kB] Get:191 http://deb.debian.org/debian stretch/main amd64 libqt5widgets5 amd64 5.7.1+dfsg-3+deb9u2 [2242 kB] Get:192 http://deb.debian.org/debian stretch/main amd64 libqt5svg5 amd64 5.7.1~20161021-2+b2 [130 kB] Get:193 http://deb.debian.org/debian stretch/main amd64 libuil4 amd64 2.3.4-13 [146 kB] Get:194 http://deb.debian.org/debian stretch/main amd64 libxss1 amd64 1:1.2.2-1 [17.5 kB] Get:195 http://deb.debian.org/debian stretch/main amd64 lua-md5 amd64 1.2+git+1+8d87fee-1 [13.1 kB] Get:196 http://deb.debian.org/debian stretch/main amd64 libboost-system1.62.0 amd64 1.62.0+dfsg-4 [32.4 kB] Get:197 http://deb.debian.org/debian stretch/main amd64 libboost-filesystem1.62.0 amd64 1.62.0+dfsg-4 [63.2 kB] Get:198 http://deb.debian.org/debian stretch/main amd64 libboost-iostreams1.62.0 amd64 1.62.0+dfsg-4 [50.8 kB] Get:199 http://deb.debian.org/debian stretch/main amd64 libboost-regex1.62.0 amd64 1.62.0+dfsg-4 [288 kB] Get:200 http://deb.debian.org/debian stretch/main amd64 libboost-thread1.62.0 amd64 1.62.0+dfsg-4 [71.5 kB] Get:201 http://deb.debian.org/debian stretch/main amd64 mira-assembler amd64 4.9.6-2 [2282 kB] Get:202 http://deb.debian.org/debian stretch/main amd64 mira-rfam-12s-rrna all 4.9.6-2 [10.4 MB] Get:203 http://deb.debian.org/debian stretch/main amd64 libterm-readkey-perl amd64 2.37-1 [27.2 kB] Get:204 http://deb.debian.org/debian stretch/main amd64 libwebp6 amd64 0.5.2-1 [235 kB] Get:205 http://deb.debian.org/debian stretch/main amd64 libxpm4 amd64 1:3.5.12-1 [49.1 kB] Get:206 http://deb.debian.org/debian stretch/main amd64 libgd3 amd64 2.2.4-2+deb9u5 [132 kB] Get:207 http://deb.debian.org/debian stretch/main amd64 libquadmath0 amd64 6.3.0-18+deb9u1 [131 kB] Get:208 http://deb.debian.org/debian stretch/main amd64 libgfortran3 amd64 6.3.0-18+deb9u1 [265 kB] Get:209 http://deb.debian.org/debian stretch/main amd64 libgsl2 amd64 2.3+dfsg-1 [893 kB] Get:210 http://deb.debian.org/debian stretch/main amd64 libhdf4-0-alt amd64 4.2.12-3 [276 kB] Get:211 http://deb.debian.org/debian stretch/main amd64 proj-data all 4.9.3-1 [4069 kB] Get:212 http://deb.debian.org/debian stretch/main amd64 libproj12 amd64 4.9.3-1 [183 kB] Get:213 http://deb.debian.org/debian stretch/main amd64 pdl amd64 1:2.017-1 [3678 kB] Get:214 http://deb.debian.org/debian stretch/main amd64 poppler-data all 0.4.7-8 [1451 kB] Get:215 http://deb.debian.org/debian stretch/main amd64 libpython3.5-minimal amd64 3.5.3-1+deb9u1 [573 kB] Get:216 http://deb.debian.org/debian stretch/main amd64 python3.5-minimal amd64 3.5.3-1+deb9u1 [1691 kB] Get:217 http://deb.debian.org/debian stretch/main amd64 python3-minimal amd64 3.5.3-1 [35.3 kB] Get:218 http://deb.debian.org/debian stretch/main amd64 libmpdec2 amd64 2.4.2-1 [85.2 kB] Get:219 http://deb.debian.org/debian stretch/main amd64 libpython3.5-stdlib amd64 3.5.3-1+deb9u1 [2167 kB] Get:220 http://deb.debian.org/debian stretch/main amd64 python3.5 amd64 3.5.3-1+deb9u1 [229 kB] Get:221 http://deb.debian.org/debian stretch/main amd64 libpython3-stdlib amd64 3.5.3-1 [18.6 kB] Get:222 http://deb.debian.org/debian stretch/main amd64 dh-python all 2.20170125 [86.8 kB] Get:223 http://deb.debian.org/debian stretch/main amd64 python3 amd64 3.5.3-1 [21.6 kB] Get:224 http://deb.debian.org/debian stretch/main amd64 sgml-base all 1.29 [14.8 kB] Get:225 http://deb.debian.org/debian stretch/main amd64 libjs-jquery all 3.1.1-2+deb9u1 [154 kB] Get:226 http://deb.debian.org/debian stretch/main amd64 libjs-jquery-metadata all 11-3 [7188 B] Get:227 http://deb.debian.org/debian stretch/main amd64 libjs-jquery-tablesorter all 11-3 [43.9 kB] Get:228 http://deb.debian.org/debian stretch/main amd64 libjs-twitter-bootstrap all 2.0.2+dfsg-10 [98.8 kB] Get:229 http://deb.debian.org/debian stretch/main amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-1 [31.5 kB] Get:230 http://deb.debian.org/debian stretch/main amd64 tzdata all 2020a-0+deb9u1 [278 kB] Get:231 http://deb.debian.org/debian stretch/main amd64 dmidecode amd64 3.0-4 [68.3 kB] Get:232 http://deb.debian.org/debian stretch/main amd64 libassuan0 amd64 2.4.3-2 [42.5 kB] Get:233 http://deb.debian.org/debian stretch/main amd64 pinentry-curses amd64 1.0.0-2 [50.5 kB] Get:234 http://deb.debian.org/debian stretch/main amd64 libnpth0 amd64 1.3-1 [14.6 kB] Get:235 http://deb.debian.org/debian stretch/main amd64 gnupg-agent amd64 2.1.18-8~deb9u4 [554 kB] Get:236 http://deb.debian.org/debian stretch/main amd64 libksba8 amd64 1.3.5-2 [99.7 kB] Get:237 http://deb.debian.org/debian stretch/main amd64 gnupg amd64 2.1.18-8~deb9u4 [1128 kB] Get:238 http://deb.debian.org/debian stretch/main amd64 libpopt0 amd64 1.16-10+b2 [49.4 kB] Get:239 http://deb.debian.org/debian stretch/main amd64 netbase all 5.4 [19.1 kB] Get:240 http://deb.debian.org/debian stretch/main amd64 bzip2 amd64 1.0.6-8.1 [47.5 kB] Get:241 http://deb.debian.org/debian stretch/main amd64 libapparmor1 amd64 2.11.0-3+deb9u2 [78.9 kB] Get:242 http://deb.debian.org/debian stretch/main amd64 dbus amd64 1.10.32-0+deb9u1 [213 kB] Get:243 http://deb.debian.org/debian stretch/main amd64 libmagic-mgc amd64 1:5.30-1+deb9u3 [222 kB] Get:244 http://deb.debian.org/debian stretch/main amd64 libmagic1 amd64 1:5.30-1+deb9u3 [111 kB] Get:245 http://deb.debian.org/debian stretch/main amd64 file amd64 1:5.30-1+deb9u3 [64.2 kB] Get:246 http://deb.debian.org/debian stretch/main amd64 gettext-base amd64 0.19.8.1-2+deb9u1 [122 kB] Get:247 http://deb.debian.org/debian stretch/main amd64 krb5-locales all 1.15-1+deb9u1 [93.8 kB] Get:248 http://deb.debian.org/debian stretch/main amd64 libcap2 amd64 1:2.25-1 [16.8 kB] Get:249 http://deb.debian.org/debian stretch/main amd64 libedit2 amd64 3.1-20160903-3 [84.8 kB] Get:250 http://deb.debian.org/debian stretch/main amd64 libgc1c2 amd64 1:7.4.2-8 [208 kB] Get:251 http://deb.debian.org/debian stretch/main amd64 libgpm2 amd64 1.20.4-6.2+b1 [34.2 kB] Get:252 http://deb.debian.org/debian stretch/main amd64 libwrap0 amd64 7.6.q-26 [58.2 kB] Get:253 http://deb.debian.org/debian stretch/main amd64 manpages all 4.10-2 [1222 kB] Get:254 http://deb.debian.org/debian stretch/main amd64 openssh-client amd64 1:7.4p1-10+deb9u7 [780 kB] Get:255 http://deb.debian.org/debian stretch/main amd64 xz-utils amd64 5.2.2-1.2+b1 [266 kB] Get:256 http://deb.debian.org/debian stretch/main amd64 mummer amd64 3.23+dfsg-2 [809 kB] Get:257 http://deb.debian.org/debian stretch/main amd64 abacas all 1.3.1-3 [23.9 kB] Get:258 http://deb.debian.org/debian stretch/main amd64 make amd64 4.1-9.1 [302 kB] Get:259 http://deb.debian.org/debian stretch/main amd64 libnl-3-200 amd64 3.2.27-2 [61.5 kB] Get:260 http://deb.debian.org/debian stretch/main amd64 libnl-route-3-200 amd64 3.2.27-2 [136 kB] Get:261 http://deb.debian.org/debian stretch/main amd64 libibverbs1 amd64 1.2.1-2 [39.3 kB] Get:262 http://deb.debian.org/debian stretch/main amd64 libpsm-infinipath1 amd64 3.3+19.g67c0807.open-3 [169 kB] Get:263 http://deb.debian.org/debian stretch/main amd64 librdmacm1 amd64 1.1.0-2 [49.4 kB] Get:264 http://deb.debian.org/debian stretch/main amd64 libfabric1 amd64 1.4.0-1 [259 kB] Get:265 http://deb.debian.org/debian stretch/main amd64 libnuma1 amd64 2.0.11-2.1 [33.3 kB] Get:266 http://deb.debian.org/debian stretch/main amd64 libhwloc5 amd64 1.11.5-1 [105 kB] Get:267 http://deb.debian.org/debian stretch/main amd64 libpciaccess0 amd64 0.13.4-1+b2 [50.0 kB] Get:268 http://deb.debian.org/debian stretch/main amd64 ocl-icd-libopencl1 amd64 2.2.11-1 [36.8 kB] Get:269 http://deb.debian.org/debian stretch/main amd64 libhwloc-plugins amd64 1.11.5-1 [16.1 kB] Get:270 http://deb.debian.org/debian stretch/main amd64 libopenmpi2 amd64 2.0.2-2 [2008 kB] Get:271 http://deb.debian.org/debian stretch/main amd64 abyss amd64 2.0.2-2 [1388 kB] Get:272 http://deb.debian.org/debian stretch/main amd64 adapterremoval amd64 2.2.0-1 [202 kB] Get:273 http://deb.debian.org/debian stretch/main amd64 gnustep-common amd64 2.6.8-2.1 [115 kB] Get:274 http://deb.debian.org/debian stretch/main amd64 openssl amd64 1.1.0l-1~deb9u1 [749 kB] Get:275 http://deb.debian.org/debian stretch/main amd64 ca-certificates all 20200601~deb9u1 [160 kB] Get:276 http://deb.debian.org/debian stretch/main amd64 gnustep-base-common all 1.24.9-3.1+deb9u1 [254 kB] Get:277 http://deb.debian.org/debian stretch/main amd64 libobjc4 amd64 6.3.0-18+deb9u1 [49.5 kB] Get:278 http://deb.debian.org/debian stretch/main amd64 libxslt1.1 amd64 1.1.29-2.1+deb9u2 [233 kB] Get:279 http://deb.debian.org/debian stretch/main amd64 libgnustep-base1.24 amd64 1.24.9-3.1+deb9u1 [1276 kB] Get:280 http://deb.debian.org/debian stretch/main amd64 adun-core amd64 0.81-9+b2 [757 kB] Get:281 http://deb.debian.org/debian stretch/main amd64 liblua5.1-0 amd64 5.1.5-8.1+b2 [111 kB] Get:282 http://deb.debian.org/debian stretch/main amd64 libtre5 amd64 0.8.0-6 [58.5 kB] Get:283 http://deb.debian.org/debian stretch/main amd64 lua-filesystem amd64 1.6.3-1 [10.3 kB] Get:284 http://deb.debian.org/debian stretch/main amd64 lua-lpeg amd64 1.0.0-1 [30.4 kB] Get:285 http://deb.debian.org/debian stretch/main amd64 libpth20 amd64 2.0.7-20+b2 [78.5 kB] Get:286 http://deb.debian.org/debian stretch/main amd64 genometools-common all 1.5.9+ds-4 [171 kB] Get:287 http://deb.debian.org/debian stretch/main amd64 libgenometools0 amd64 1.5.9+ds-4 [1775 kB] Get:288 http://deb.debian.org/debian stretch/main amd64 libjs-jquery-datatables all 1.10.13+dfsg-2 [135 kB] Get:289 http://deb.debian.org/debian stretch/main amd64 libjs-mootools all 1.4.5~debian1-2.1 [242 kB] Get:290 http://deb.debian.org/debian stretch/main amd64 aegean amd64 0.15.2+dfsg-1 [199 kB] Get:291 http://deb.debian.org/debian stretch/main amd64 aevol amd64 4.4-1+b4 [426 kB] Get:292 http://deb.debian.org/debian stretch/main amd64 libnspr4 amd64 2:4.12-6 [117 kB] Get:293 http://deb.debian.org/debian stretch/main amd64 libnss3 amd64 2:3.26.2-1.1+deb9u1 [1161 kB] Get:294 http://deb.debian.org/debian stretch/main amd64 ca-certificates-java all 20170929~deb9u3 [15.1 kB] Get:295 http://deb.debian.org/debian stretch/main amd64 java-common all 0.58+deb9u1 [13.6 kB] Get:296 http://deb.debian.org/debian stretch/main amd64 libpcsclite1 amd64 1.8.20-1 [56.5 kB] Get:297 http://deb.debian.org/debian stretch/main amd64 libxtst6 amd64 2:1.2.3-1 [27.8 kB] Get:298 http://deb.debian.org/debian stretch/main amd64 openjdk-8-jre-headless amd64 8u252-b09-1~deb9u1 [27.4 MB] Get:299 http://deb.debian.org/debian stretch/main amd64 default-jre-headless amd64 2:1.8-58+deb9u1 [10.1 kB] Get:300 http://deb.debian.org/debian stretch/main amd64 libatspi2.0-0 amd64 2.22.0-6+deb9u1 [60.9 kB] Get:301 http://deb.debian.org/debian stretch/main amd64 libatk-bridge2.0-0 amd64 2.22.0-2 [56.3 kB] Get:302 http://deb.debian.org/debian stretch/main amd64 libcairo-gobject2 amd64 1.14.8-1 [336 kB] Get:303 http://deb.debian.org/debian stretch/main amd64 libdconf1 amd64 0.26.0-2+b1 [37.6 kB] Get:304 http://deb.debian.org/debian stretch/main amd64 dconf-service amd64 0.26.0-2+b1 [34.7 kB] Get:305 http://deb.debian.org/debian stretch/main amd64 dconf-gsettings-backend amd64 0.26.0-2+b1 [26.4 kB] Get:306 http://deb.debian.org/debian stretch/main amd64 libgtk-3-common all 3.22.11-1 [3416 kB] Get:307 http://deb.debian.org/debian stretch/main amd64 libcolord2 amd64 1.3.3-2 [252 kB] Get:308 http://deb.debian.org/debian stretch/main amd64 libepoxy0 amd64 1.3.1-2 [176 kB] Get:309 http://deb.debian.org/debian stretch/main amd64 libjson-glib-1.0-common all 1.2.6-1 [166 kB] Get:310 http://deb.debian.org/debian stretch/main amd64 libjson-glib-1.0-0 amd64 1.2.6-1 [178 kB] Get:311 http://deb.debian.org/debian stretch/main amd64 glib-networking-common all 2.50.0-1+deb9u1 [49.2 kB] Get:312 http://deb.debian.org/debian stretch/main amd64 glib-networking-services amd64 2.50.0-1+deb9u1 [12.2 kB] Get:313 http://deb.debian.org/debian stretch/main amd64 gsettings-desktop-schemas all 3.22.0-1 [473 kB] Get:314 http://deb.debian.org/debian stretch/main amd64 glib-networking amd64 2.50.0-1+deb9u1 [57.0 kB] Get:315 http://deb.debian.org/debian stretch/main amd64 libsoup2.4-1 amd64 2.56.0-2+deb9u2 [296 kB] Get:316 http://deb.debian.org/debian stretch/main amd64 libsoup-gnome2.4-1 amd64 2.56.0-2+deb9u2 [16.4 kB] Get:317 http://deb.debian.org/debian stretch/main amd64 librest-0.7-0 amd64 0.8.0-2 [33.0 kB] Get:318 http://deb.debian.org/debian stretch/main amd64 libwayland-cursor0 amd64 1.12.0-1+deb9u1 [13.5 kB] Get:319 http://deb.debian.org/debian stretch/main amd64 libwayland-egl1-mesa amd64 13.0.6-1+b2 [43.0 kB] Get:320 http://deb.debian.org/debian stretch/main amd64 libgtk-3-0 amd64 3.22.11-1 [2529 kB] Get:321 http://deb.debian.org/debian stretch/main amd64 libfontenc1 amd64 1:1.1.3-1+b2 [24.4 kB] Get:322 http://deb.debian.org/debian stretch/main amd64 libxaw7 amd64 2:1.0.13-1+b2 [201 kB] Get:323 http://deb.debian.org/debian stretch/main amd64 libxmuu1 amd64 2:1.1.2-2 [23.5 kB] Get:324 http://deb.debian.org/debian stretch/main amd64 libxv1 amd64 2:1.0.11-1 [24.6 kB] Get:325 http://deb.debian.org/debian stretch/main amd64 libxxf86dga1 amd64 2:1.1.4-1+b3 [22.1 kB] Get:326 http://deb.debian.org/debian stretch/main amd64 x11-utils amd64 7.7+3+b1 [202 kB] Get:327 http://deb.debian.org/debian stretch/main amd64 libatk-wrapper-java all 0.33.3-13+deb9u1 [44.1 kB] Get:328 http://deb.debian.org/debian stretch/main amd64 libatk-wrapper-java-jni amd64 0.33.3-13+deb9u1 [37.5 kB] Get:329 http://deb.debian.org/debian stretch/main amd64 libasound2-data all 1.1.3-5 [173 kB] Get:330 http://deb.debian.org/debian stretch/main amd64 libasound2 amd64 1.1.3-5 [497 kB] Get:331 http://deb.debian.org/debian stretch/main amd64 libgif7 amd64 5.1.4-0.4 [43.1 kB] Get:332 http://deb.debian.org/debian stretch/main amd64 libasyncns0 amd64 0.8-6 [12.5 kB] Get:333 http://deb.debian.org/debian stretch/main amd64 libflac8 amd64 1.3.2-1 [221 kB] Get:334 http://deb.debian.org/debian stretch/main amd64 libvorbis0a amd64 1.3.5-4+deb9u2 [91.7 kB] Get:335 http://deb.debian.org/debian stretch/main amd64 libvorbisenc2 amd64 1.3.5-4+deb9u2 [79.4 kB] Get:336 http://deb.debian.org/debian stretch/main amd64 libsndfile1 amd64 1.0.27-3 [248 kB] Get:337 http://deb.debian.org/debian stretch/main amd64 libpulse0 amd64 10.0-1+deb9u1 [283 kB] Get:338 http://deb.debian.org/debian stretch/main amd64 openjdk-8-jre amd64 8u252-b09-1~deb9u1 [69.8 kB] Get:339 http://deb.debian.org/debian stretch/main amd64 default-jre amd64 2:1.8-58+deb9u1 [930 B] Get:340 http://deb.debian.org/debian stretch/main amd64 libbytecode-java all 0.92.svn.20090106-2 [89.1 kB] Get:341 http://deb.debian.org/debian stretch/main amd64 libcommons-pool-java all 1.6-3 [104 kB] Get:342 http://deb.debian.org/debian stretch/main amd64 libcommons-collections3-java all 3.2.2-1 [599 kB] Get:343 http://deb.debian.org/debian stretch/main amd64 libcommons-dbcp-java all 1.4-5 [155 kB] Get:344 http://deb.debian.org/debian stretch/main amd64 libservlet3.1-java all 8.5.54-0+deb9u1 [403 kB] Get:345 http://deb.debian.org/debian stretch/main amd64 libhsqldb-java all 2.3.4-1 [1502 kB] Get:346 http://deb.debian.org/debian stretch/main amd64 libbiojava1.7-java all 1:1.7.1-5 [3160 kB] Get:347 http://deb.debian.org/debian stretch/main amd64 libbiojava-java all 1:1.7.1-5 [48.4 kB] Get:348 http://deb.debian.org/debian stretch/main amd64 libcommons-cli-java all 1.3.1-3 [55.2 kB] Get:349 http://deb.debian.org/debian stretch/main amd64 alien-hunter all 1.7-5 [28.4 kB] Get:350 http://deb.debian.org/debian stretch/main amd64 alter-sequence-alignment amd64 1.3.3+dfsg-1 [223 kB] Get:351 http://deb.debian.org/debian stretch/main amd64 libblas-common amd64 3.7.0-2 [14.2 kB] Get:352 http://deb.debian.org/debian stretch/main amd64 libatlas3-base amd64 3.10.3-1+b1 [3048 kB] Get:353 http://deb.debian.org/debian stretch/main amd64 libblas3 amd64 3.7.0-2 [155 kB] Get:354 http://deb.debian.org/debian stretch/main amd64 libopenblas-base amd64 0.2.19-3 [3793 kB] Get:355 http://deb.debian.org/debian stretch/main amd64 libtamuanova-0.2 amd64 0.2-4 [7610 B] Get:356 http://deb.debian.org/debian stretch/main amd64 libmath-tamuanova-perl amd64 1.0.2-2+b4 [13.5 kB] Get:357 http://deb.debian.org/debian stretch/main amd64 altree amd64 1.3.1-4+b2 [338 kB] Get:358 http://deb.debian.org/debian stretch/main amd64 amap-align amd64 2.2-6 [129 kB] Get:359 http://deb.debian.org/debian stretch/main amd64 libdivsufsort3 amd64 2.0.1-2 [46.3 kB] Get:360 http://deb.debian.org/debian stretch/main amd64 andi amd64 0.10-2 [466 kB] Get:361 http://deb.debian.org/debian stretch/main amd64 libelf1 amd64 0.168-1 [157 kB] Get:362 http://deb.debian.org/debian stretch/main amd64 libelk0 amd64 3.99.8-4.1+b1 [166 kB] Get:363 http://deb.debian.org/debian stretch/main amd64 libprotobuf10 amd64 3.0.0-9 [681 kB] Get:364 http://deb.debian.org/debian stretch/main amd64 libanfo0 amd64 0.98-5 [272 kB] Get:365 http://deb.debian.org/debian stretch/main amd64 anfo amd64 0.98-5 [116 kB] Get:366 http://deb.debian.org/debian stretch/main amd64 ant all 1.9.9-1+deb9u1 [1923 kB] Get:367 http://deb.debian.org/debian stretch/main amd64 ant-optional all 1.9.9-1+deb9u1 [350 kB] Get:368 http://deb.debian.org/debian stretch/main amd64 libmaloc1 amd64 0.2-3.1 [49.3 kB] Get:369 http://deb.debian.org/debian stretch/main amd64 apbs amd64 1.4-1+b1 [218 kB] Get:370 http://deb.debian.org/debian stretch/main amd64 aragorn amd64 1.2.38-1 [86.0 kB] Get:371 http://deb.debian.org/debian stretch/main amd64 python-decorator all 4.0.11-1 [13.3 kB] Get:372 http://deb.debian.org/debian stretch/main amd64 liblapack3 amd64 3.7.0-2 [2141 kB] Get:373 http://deb.debian.org/debian stretch/main amd64 python-numpy amd64 1:1.12.1-3 [1936 kB] Get:374 http://deb.debian.org/debian stretch/main amd64 python-scipy amd64 0.18.1-2 [8933 kB] Get:375 http://deb.debian.org/debian stretch/main amd64 python-htseq amd64 0.6.1p1-4 [188 kB] Get:376 http://deb.debian.org/debian stretch/main amd64 python-six all 1.10.0-3 [14.4 kB] Get:377 http://deb.debian.org/debian stretch/main amd64 python-dateutil all 2.5.3-2 [51.3 kB] Get:378 http://deb.debian.org/debian stretch/main amd64 fonts-lyx all 2.2.2-1 [197 kB] Get:379 http://deb.debian.org/debian stretch/main amd64 python-matplotlib-data all 2.0.0+dfsg1-2 [4414 kB] Get:380 http://deb.debian.org/debian stretch/main amd64 python-pyparsing all 2.1.10+dfsg1-1 [88.5 kB] Get:381 http://deb.debian.org/debian stretch/main amd64 python-tz all 2016.7-0.3 [33.7 kB] Get:382 http://deb.debian.org/debian stretch/main amd64 libjs-jquery-ui all 1.12.1+dfsg-4 [232 kB] Get:383 http://deb.debian.org/debian stretch/main amd64 python-cycler all 0.10.0-1 [7448 B] Get:384 http://deb.debian.org/debian stretch/main amd64 python-functools32 all 3.2.3.2-3 [11.0 kB] Get:385 http://deb.debian.org/debian stretch/main amd64 python-subprocess32 amd64 3.2.7-2 [28.9 kB] Get:386 http://deb.debian.org/debian stretch/main amd64 python-matplotlib amd64 2.0.0+dfsg1-2 [1598 kB] Get:387 http://deb.debian.org/debian stretch/main amd64 arden all 1.0-3 [88.7 kB] Get:388 http://deb.debian.org/debian stretch/main amd64 python3-pkg-resources all 33.1.1-1 [137 kB] Get:389 http://deb.debian.org/debian stretch/main amd64 libunistring0 amd64 0.9.6+really0.9.3-0.1 [279 kB] Get:390 http://deb.debian.org/debian stretch/main amd64 libidn2-0 amd64 0.16-1+deb9u1 [60.7 kB] Get:391 http://deb.debian.org/debian stretch/main amd64 libpsl5 amd64 0.17.0-3 [41.8 kB] Get:392 http://deb.debian.org/debian stretch/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-1+b1 [60.4 kB] Get:393 http://deb.debian.org/debian stretch/main amd64 libssh2-1 amd64 1.7.0-1+deb9u1 [139 kB] Get:394 http://deb.debian.org/debian stretch/main amd64 libcurl3-gnutls amd64 7.52.1-5+deb9u10 [290 kB] Get:395 http://deb.debian.org/debian stretch/main amd64 libhts1 amd64 1.3.2-2 [257 kB] Get:396 http://deb.debian.org/debian stretch/main amd64 samtools amd64 1.3.1-3 [254 kB] Get:397 http://deb.debian.org/debian stretch/main amd64 fastaq all 3.14.0-1 [46.6 kB] Get:398 http://deb.debian.org/debian stretch/main amd64 python3-dendropy all 4.2.0+dfsg-1 [7494 kB] Get:399 http://deb.debian.org/debian stretch/main amd64 python3-pymummer all 0.10.1-1 [8872 B] Get:400 http://deb.debian.org/debian stretch/main amd64 python3-pysam amd64 0.10.0+ds-2 [1299 kB] Get:401 http://deb.debian.org/debian stretch/main amd64 libfml0 amd64 0.1-2+b1 [68.7 kB] Get:402 http://deb.debian.org/debian stretch/main amd64 libminimap0 amd64 0.2-3+b1 [22.6 kB] Get:403 http://deb.debian.org/debian stretch/main amd64 libatomic1 amd64 6.3.0-18+deb9u1 [8966 B] Get:404 http://deb.debian.org/debian stretch/main amd64 libtbb2 amd64 4.3~20150611-2 [136 kB] Get:405 http://deb.debian.org/debian stretch/main amd64 bowtie2 amd64 2.3.0-2 [1166 kB] Get:406 http://deb.debian.org/debian stretch/main amd64 cd-hit amd64 4.6.6-2 [852 kB] Get:407 http://deb.debian.org/debian stretch/main amd64 libcapnp-0.5.3 amd64 0.5.3-2 [584 kB] Get:408 http://deb.debian.org/debian stretch/main amd64 mash amd64 1.1.1-2 [126 kB] Get:409 http://deb.debian.org/debian stretch/main amd64 ariba amd64 2.6.1+ds-1 [104 kB] Get:410 http://deb.debian.org/debian stretch/main amd64 art-nextgen-simulation-tools amd64 20160605+dfsg-2 [1757 kB] Get:411 http://deb.debian.org/debian stretch/main amd64 binfmt-support amd64 2.1.6-2 [59.5 kB] Get:412 http://deb.debian.org/debian stretch/main amd64 fastjar amd64 2:0.98-6+b1 [81.0 kB] Get:413 http://deb.debian.org/debian stretch/main amd64 jarwrapper all 0.59 [17.9 kB] Get:414 http://deb.debian.org/debian stretch/main amd64 libhpdf-2.2.1 amd64 2.2.1-1.1+b1 [319 kB] Get:415 http://deb.debian.org/debian stretch/main amd64 mysql-common all 5.8+1.0.2 [5608 B] Get:416 http://deb.debian.org/debian stretch/main amd64 libmariadbclient18 amd64 10.1.45-0+deb9u1 [785 kB] Get:417 http://deb.debian.org/debian stretch/main amd64 libpq5 amd64 9.6.17-0+deb9u1 [137 kB] Get:418 http://deb.debian.org/debian stretch/main amd64 emboss-lib amd64 6.6.0+dfsg-6 [2773 kB] Get:419 http://deb.debian.org/debian stretch/main amd64 emboss-data all 6.6.0+dfsg-6 [61.1 MB] Get:420 http://deb.debian.org/debian stretch/main amd64 emboss amd64 6.6.0+dfsg-6 [1058 kB] Get:421 http://deb.debian.org/debian stretch/main amd64 jemboss all 6.6.0+dfsg-6 [3796 kB] Get:422 http://deb.debian.org/debian stretch/main amd64 unzip amd64 6.0-21+deb9u2 [172 kB] Get:423 http://deb.debian.org/debian stretch/main amd64 java-wrappers all 0.1.28 [10.7 kB] Get:424 http://deb.debian.org/debian stretch/main amd64 libapache-pom-java all 10-2 [3870 B] Get:425 http://deb.debian.org/debian stretch/main amd64 libbsf-java all 1:2.4.0-5 [72.2 kB] Get:426 http://deb.debian.org/debian stretch/main amd64 libcommons-parent-java all 39-3 [9350 B] Get:427 http://deb.debian.org/debian stretch/main amd64 libcommons-io-java all 2.5-1 [206 kB] Get:428 http://deb.debian.org/debian stretch/main amd64 libcommons-logging-java all 1.2-1 [62.1 kB] Get:429 http://deb.debian.org/debian stretch/main amd64 libjaxp1.3-java all 1.3.05-2 [450 kB] Get:430 http://deb.debian.org/debian stretch/main amd64 libxml-commons-resolver1.1-java all 1.2-7 [91.9 kB] Get:431 http://deb.debian.org/debian stretch/main amd64 libxml-commons-external-java all 1.4.01-2 [245 kB] Get:432 http://deb.debian.org/debian stretch/main amd64 libxerces2-java all 2.11.0-7 [1365 kB] Get:433 http://deb.debian.org/debian stretch/main amd64 libxalan2-java all 2.7.1-9 [3169 kB] Get:434 http://deb.debian.org/debian stretch/main amd64 libxmlgraphics-commons-java all 2.1-2 [590 kB] Get:435 http://deb.debian.org/debian stretch/main amd64 libbatik-java all 1.8-4+deb9u2 [2893 kB] Get:436 http://deb.debian.org/debian stretch/main amd64 libcommons-lang3-java all 3.5-1 [437 kB] Get:437 http://deb.debian.org/debian stretch/main amd64 libcommons-net-java all 3.5-1 [281 kB] Get:438 http://deb.debian.org/debian stretch/main amd64 libcommons-compress-java all 1.13-1 [430 kB] Get:439 http://deb.debian.org/debian stretch/main amd64 libcommons-jexl2-java all 2.1.1-3 [246 kB] Get:440 http://deb.debian.org/debian stretch/main amd64 libngs-sdk1 amd64 1.3.0-2 [51.2 kB] Get:441 http://deb.debian.org/debian stretch/main amd64 libngs-sdk-dev amd64 1.3.0-2 [92.4 kB] Get:442 http://deb.debian.org/debian stretch/main amd64 libngs-java amd64 1.3.0-2 [71.1 kB] Get:443 http://deb.debian.org/debian stretch/main amd64 libsnappy1v5 amd64 1.1.3-3 [51.0 kB] Get:444 http://deb.debian.org/debian stretch/main amd64 libsnappy-jni amd64 1.1.2.6-1 [6808 B] Get:445 http://deb.debian.org/debian stretch/main amd64 libsnappy-java all 1.1.2.6-1 [65.9 kB] Get:446 http://deb.debian.org/debian stretch/main amd64 libxz-java all 1.6-1 [128 kB] Get:447 http://deb.debian.org/debian stretch/main amd64 libhtsjdk-java all 2.8.1+dfsg-1 [1438 kB] Get:448 http://deb.debian.org/debian stretch/main amd64 libibatis-java all 2.3.4.726-6 [339 kB] Get:449 http://deb.debian.org/debian stretch/main amd64 libj2ssh-java all 0.2.9-4 [740 kB] Get:450 http://deb.debian.org/debian stretch/main amd64 liblog4j1.2-java all 1.2.17-7+deb9u1 [431 kB] Get:451 http://deb.debian.org/debian stretch/main amd64 libatinject-jsr330-api-java all 1.0+ds1-2 [22.7 kB] Get:452 http://deb.debian.org/debian stretch/main amd64 libjsr305-java all 0.1~+svn49-10 [26.5 kB] Get:453 http://deb.debian.org/debian stretch/main amd64 libguava-java all 19.0-1 [2028 kB] Get:454 http://deb.debian.org/debian stretch/main amd64 libpicard-java all 2.8.1+dfsg-1 [1190 kB] Get:455 http://deb.debian.org/debian stretch/main amd64 libpostgresql-jdbc-java all 9.4.1212-1 [629 kB] Get:456 http://deb.debian.org/debian stretch/main amd64 artemis all 16.0.17+dfsg-1 [2622 kB] Get:457 http://deb.debian.org/debian stretch/main amd64 artfastqgenerator all 0.0.20150519-2 [40.2 kB] Get:458 http://deb.debian.org/debian stretch/main amd64 at-spi2-core amd64 2.22.0-6+deb9u1 [69.3 kB] Get:459 http://deb.debian.org/debian stretch/main amd64 libfile-which-perl all 1.21-1 [14.3 kB] Get:460 http://deb.debian.org/debian stretch/main amd64 leaff amd64 0~20150903+r2013-3 [71.3 kB] Get:461 http://deb.debian.org/debian stretch/main amd64 meryl amd64 0~20150903+r2013-3 [194 kB] Get:462 http://deb.debian.org/debian stretch/main amd64 aglfn all 1.7-3 [29.2 kB] Get:463 http://deb.debian.org/debian stretch/main amd64 gnuplot-data all 5.0.5+dfsg1-6+deb9u1 [127 kB] Get:464 http://deb.debian.org/debian stretch/main amd64 libqt5printsupport5 amd64 5.7.1+dfsg-3+deb9u2 [199 kB] Get:465 http://deb.debian.org/debian stretch/main amd64 libwxbase3.0-0v5 amd64 3.0.2+dfsg-4 [1073 kB] Get:466 http://deb.debian.org/debian stretch/main amd64 libnotify4 amd64 0.7.7-2 [21.9 kB] Get:467 http://deb.debian.org/debian stretch/main amd64 libwxgtk3.0-0v5 amd64 3.0.2+dfsg-4 [4493 kB] Get:468 http://deb.debian.org/debian stretch/main amd64 gnuplot-qt amd64 5.0.5+dfsg1-6+deb9u1 [1038 kB] Get:469 http://deb.debian.org/debian stretch/main amd64 gnuplot all 5.0.5+dfsg1-6+deb9u1 [70.8 kB] Get:470 http://deb.debian.org/debian stretch/main amd64 atac amd64 0~20150903+r2013-3 [383 kB] Get:471 http://deb.debian.org/debian stretch/main amd64 libbamtools2.4.0 amd64 2.4.1+dfsg-1 [190 kB] Get:472 http://deb.debian.org/debian stretch/main amd64 augustus-data all 3.2.3+dfsg-1 [14.9 MB] Get:473 http://deb.debian.org/debian stretch/main amd64 augustus amd64 3.2.3+dfsg-1 [1110 kB] Get:474 http://deb.debian.org/debian stretch/main amd64 m4 amd64 1.4.18-1 [202 kB] Get:475 http://deb.debian.org/debian stretch/main amd64 autoconf all 2.69-10 [338 kB] Get:476 http://deb.debian.org/debian stretch/main amd64 autodock amd64 4.2.6-3+b1 [160 kB] Get:477 http://deb.debian.org/debian stretch/main amd64 autogrid amd64 4.2.6-3+b1 [48.3 kB] Get:478 http://deb.debian.org/debian stretch/main amd64 autotools-dev all 20161112.1 [73.4 kB] Get:479 http://deb.debian.org/debian stretch/main amd64 automake all 1:1.15-6 [733 kB] Get:480 http://deb.debian.org/debian stretch/main amd64 autopoint all 0.19.8.1-2+deb9u1 [433 kB] Get:481 http://deb.debian.org/debian stretch/main amd64 libqes0 amd64 0.2.7-1 [15.0 kB] Get:482 http://deb.debian.org/debian stretch/main amd64 axe-demultiplexer amd64 0.3.2+dfsg1-1 [213 kB] Get:483 http://deb.debian.org/debian stretch/main amd64 libboost-chrono1.62.0 amd64 1.62.0+dfsg-4 [36.0 kB] Get:484 http://deb.debian.org/debian stretch/main amd64 libboost-date-time1.62.0 amd64 1.62.0+dfsg-4 [42.9 kB] Get:485 http://deb.debian.org/debian stretch/main amd64 libboost-serialization1.62.0 amd64 1.62.0+dfsg-4 [125 kB] Get:486 http://deb.debian.org/debian stretch/main amd64 libfftw3-single3 amd64 3.3.5-3 [776 kB] Get:487 http://deb.debian.org/debian stretch/main amd64 libpython2.7 amd64 2.7.13-2+deb9u3 [1071 kB] Get:488 http://deb.debian.org/debian stretch/main amd64 qtcore4-l10n all 4:4.8.7+dfsg-11 [662 kB] Get:489 http://deb.debian.org/debian stretch/main amd64 libqtcore4 amd64 4:4.8.7+dfsg-11 [1598 kB] Get:490 http://deb.debian.org/debian stretch/main amd64 libqt4-xml amd64 4:4.8.7+dfsg-11 [143 kB] Get:491 http://deb.debian.org/debian stretch/main amd64 libqtdbus4 amd64 4:4.8.7+dfsg-11 [232 kB] Get:492 http://deb.debian.org/debian stretch/main amd64 libqt4-network amd64 4:4.8.7+dfsg-11 [606 kB] Get:493 http://deb.debian.org/debian stretch/main amd64 libqt4-sql amd64 4:4.8.7+dfsg-11 [145 kB] Get:494 http://deb.debian.org/debian stretch/main amd64 libball1.4-data all 1.4.3~beta1-3 [28.7 MB] Get:495 http://deb.debian.org/debian stretch/main amd64 libball1.4 amd64 1.4.3~beta1-3 [3236 kB] Get:496 http://deb.debian.org/debian stretch/main amd64 libglew2.0 amd64 2.0.0-3+b1 [143 kB] Get:497 http://deb.debian.org/debian stretch/main amd64 libglu1-mesa amd64 9.0.0-2.1 [168 kB] Get:498 http://deb.debian.org/debian stretch/main amd64 libmng1 amd64 1.0.10+dfsg-3.1+b5 [211 kB] Get:499 http://deb.debian.org/debian stretch/main amd64 libqtgui4 amd64 4:4.8.7+dfsg-11 [4150 kB] Get:500 http://deb.debian.org/debian stretch/main amd64 libqt4-opengl amd64 4:4.8.7+dfsg-11 [346 kB] Get:501 http://deb.debian.org/debian stretch/main amd64 libqt4-test amd64 4:4.8.7+dfsg-11 [107 kB] Get:502 http://deb.debian.org/debian stretch/main amd64 libcap2-bin amd64 1:2.25-1 [26.5 kB] Get:503 http://deb.debian.org/debian stretch/main amd64 libgstreamer1.0-0 amd64 1.10.4-1 [1962 kB] Get:504 http://deb.debian.org/debian stretch/main amd64 liborc-0.4-0 amd64 1:0.4.26-2 [140 kB] Get:505 http://deb.debian.org/debian stretch/main amd64 iso-codes all 3.75-1 [2389 kB] Get:506 http://deb.debian.org/debian stretch/main amd64 libgstreamer-plugins-base1.0-0 amd64 1.10.4-1+deb9u1 [1646 kB] Get:507 http://deb.debian.org/debian stretch/main amd64 libqt4-xmlpatterns amd64 4:4.8.7+dfsg-11 [1138 kB] Get:508 http://deb.debian.org/debian stretch/main amd64 libqtwebkit4 amd64 2.3.4.dfsg-9.1 [8882 kB] Get:509 http://deb.debian.org/debian stretch/main amd64 libballview1.4 amd64 1.4.3~beta1-3 [1440 kB] Get:510 http://deb.debian.org/debian stretch/main amd64 python-ball amd64 1.4.3~beta1-3 [886 kB] Get:511 http://deb.debian.org/debian stretch/main amd64 python-ballview amd64 1.4.3~beta1-3 [226 kB] Get:512 http://deb.debian.org/debian stretch/main amd64 ballview amd64 1.4.3~beta1-3 [2518 kB] Get:513 http://deb.debian.org/debian stretch/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:514 http://deb.debian.org/debian stretch/main amd64 bamtools amd64 2.4.1+dfsg-1 [214 kB] Get:515 http://deb.debian.org/debian stretch/main amd64 hmmer amd64 3.1b2+dfsg-5 [1122 kB] Get:516 http://deb.debian.org/debian stretch/main amd64 barrnap all 0.7+dfsg-2 [192 kB] Get:517 http://deb.debian.org/debian stretch/main amd64 bc amd64 1.06.95-9+b3 [105 kB] Get:518 http://deb.debian.org/debian stretch/main amd64 bcftools amd64 1.3.1-1+b1 [335 kB] Get:519 http://deb.debian.org/debian stretch/main amd64 beagle all 4.1~160727-86a+dfsg-1 [361 kB] Get:520 http://deb.debian.org/debian stretch/main amd64 libdrm-intel1 amd64 2.4.74-1 [68.7 kB] Get:521 http://deb.debian.org/debian stretch/main amd64 beignet-opencl-icd amd64 1.3.0-4 [12.8 MB] Get:522 http://deb.debian.org/debian stretch/main amd64 libhmsbeagle1v5 amd64 2.1.2+20160831-5 [116 kB] Get:523 http://deb.debian.org/debian stretch/main amd64 libhmsbeagle-java amd64 2.1.2+20160831-5 [24.2 kB] Get:524 http://deb.debian.org/debian stretch/main amd64 libhamcrest-java all 1.3-6 [378 kB] Get:525 http://deb.debian.org/debian stretch/main amd64 junit4 all 4.12-4 [286 kB] Get:526 http://deb.debian.org/debian stretch/main amd64 libconcurrent-java all 1.3.4-4 [133 kB] Get:527 http://deb.debian.org/debian stretch/main amd64 libcolt-free-java all 1.2.0+dfsg-4 [405 kB] Get:528 http://deb.debian.org/debian stretch/main amd64 libcommons-math-java all 2.2-6 [892 kB] Get:529 http://deb.debian.org/debian stretch/main amd64 libitext1-java all 1.4-6 [1194 kB] Get:530 http://deb.debian.org/debian stretch/main amd64 libjam-java all 0.1.20140824-2 [159 kB] Get:531 http://deb.debian.org/debian stretch/main amd64 libjaxen-java all 1.1.6-1+deb9u1 [205 kB] Get:532 http://deb.debian.org/debian stretch/main amd64 libjdom1-java all 1.1.3-1 [150 kB] Get:533 http://deb.debian.org/debian stretch/main amd64 libjebl2-java all 0.1+20140614-1 [496 kB] Get:534 http://deb.debian.org/debian stretch/main amd64 libcommons-codec-java all 1.10-1 [234 kB] Get:535 http://deb.debian.org/debian stretch/main amd64 libmpj-java all 0.44+dfsg-3 [439 kB] Get:536 http://deb.debian.org/debian stretch/main amd64 libmtj-java all 0.9.14+dfsg-4 [126 kB] Get:537 http://deb.debian.org/debian stretch/main amd64 libnucleotidelikelihoodcore0 amd64 1.8.4+dfsg.1-1 [8460 B] Get:538 http://deb.debian.org/debian stretch/main amd64 f2j amd64 0.8.1+dfsg-2 [160 kB] Get:539 http://deb.debian.org/debian stretch/main amd64 libf2j-java all 0.8.1+dfsg-2 [59.0 kB] Get:540 http://deb.debian.org/debian stretch/main amd64 libjlapack-java all 0.8~dfsg-3 [925 kB] Get:541 http://deb.debian.org/debian stretch/main amd64 libnetlib-java all 0.9.3-3 [192 kB] Get:542 http://deb.debian.org/debian stretch/main amd64 beast-mcmc all 1.8.4+dfsg.1-1 [7151 kB] Get:543 http://deb.debian.org/debian stretch/main amd64 beast2-mcmc all 2.4.4+dfsg-1 [1590 kB] Get:544 http://deb.debian.org/debian stretch/main amd64 bedtools amd64 2.26.0+dfsg-3 [584 kB] Get:545 http://deb.debian.org/debian stretch/main amd64 libboost-program-options1.62.0 amd64 1.62.0+dfsg-4 [159 kB] Get:546 http://deb.debian.org/debian stretch/main amd64 berkeley-express amd64 1.5.1-3+b1 [234 kB] Get:547 http://deb.debian.org/debian stretch/main amd64 binutils amd64 2.28-5 [3770 kB] Get:548 http://deb.debian.org/debian stretch/main amd64 bio-eagle amd64 2.3-3 [219 kB] Get:549 http://deb.debian.org/debian stretch/main amd64 bio-rainbow amd64 2.0.4-1+b1 [48.3 kB] Get:550 http://deb.debian.org/debian stretch/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:551 http://deb.debian.org/debian stretch/main amd64 libdata-stag-perl all 0.14-2 [448 kB] Get:552 http://deb.debian.org/debian stretch/main amd64 libbio-perl-perl all 1.7.1-2 [4605 kB] Get:553 http://deb.debian.org/debian stretch/main amd64 bioperl all 1.7.1-2 [422 kB] Get:554 http://deb.debian.org/debian stretch/main amd64 libbio-perl-run-perl all 1.7.1-3 [816 kB] Get:555 http://deb.debian.org/debian stretch/main amd64 bioperl-run all 1.7.1-3 [44.2 kB] Get:556 http://deb.debian.org/debian stretch/main amd64 biosquid amd64 1.9g+cvs20050121-7 [188 kB] Get:557 http://deb.debian.org/debian stretch/main amd64 libaec0 amd64 0.3.2-1 [18.5 kB] Get:558 http://deb.debian.org/debian stretch/main amd64 libsz2 amd64 0.3.2-1 [5730 B] Get:559 http://deb.debian.org/debian stretch/main amd64 libhdf5-100 amd64 1.10.0-patch1+docs-3+deb9u1 [1282 kB] Get:560 http://deb.debian.org/debian stretch/main amd64 libhdf5-cpp-100 amd64 1.10.0-patch1+docs-3+deb9u1 [130 kB] Get:561 http://deb.debian.org/debian stretch/main amd64 libpbbam amd64 0.7.4+ds-1 [478 kB] Get:562 http://deb.debian.org/debian stretch/main amd64 libpbdata amd64 0~20161219-1 [129 kB] Get:563 http://deb.debian.org/debian stretch/main amd64 libpbihdf amd64 0~20161219-1 [167 kB] Get:564 http://deb.debian.org/debian stretch/main amd64 libblasr amd64 0~20161219-1 [867 kB] Get:565 http://deb.debian.org/debian stretch/main amd64 libpbseq all 0~20161219-1 [3876 B] Get:566 http://deb.debian.org/debian stretch/main amd64 blasr amd64 5.3+0-1 [691 kB] Get:567 http://deb.debian.org/debian stretch/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb9u1 [3555 kB] Get:568 http://deb.debian.org/debian stretch/main amd64 ncbi-blast+ amd64 2.6.0-1 [9591 kB] Get:569 http://deb.debian.org/debian stretch/main amd64 ncbi-blast+-legacy all 2.6.0-1 [9604 B] Get:570 http://deb.debian.org/debian stretch/main amd64 blast2 all 1:2.6.0-1 [9084 B] Get:571 http://deb.debian.org/debian stretch/main amd64 menu amd64 2.1.47+b1 [380 kB] Get:572 http://deb.debian.org/debian stretch/main amd64 blends-common all 0.6.96 [23.3 kB] Get:573 http://deb.debian.org/debian stretch/main amd64 libtcl8.6 amd64 8.6.6+dfsg-1+b1 [985 kB] Get:574 http://deb.debian.org/debian stretch/main amd64 libtk8.6 amd64 8.6.6-1+b1 [754 kB] Get:575 http://deb.debian.org/debian stretch/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-3 [585 kB] Get:576 http://deb.debian.org/debian stretch/main amd64 blt amd64 2.5.3+dfsg-3 [14.6 kB] Get:577 http://deb.debian.org/debian stretch/main amd64 boxshade amd64 3.3.1-10 [54.4 kB] Get:578 http://deb.debian.org/debian stretch/main amd64 libcommons-lang-java all 2.6-6 [269 kB] Get:579 http://deb.debian.org/debian stretch/main amd64 libjargs-java all 1.0.0-4 [15.3 kB] Get:580 http://deb.debian.org/debian stretch/main amd64 cgview amd64 0.0.20100111-2 [586 kB] Get:581 http://deb.debian.org/debian stretch/main amd64 libswing-layout-java all 1.0.4-4 [51.3 kB] Get:582 http://deb.debian.org/debian stretch/main amd64 brig amd64 0.95+dfsg-1 [105 kB] Get:583 http://deb.debian.org/debian stretch/main amd64 libc-dev-bin amd64 2.24-11+deb9u4 [259 kB] Get:584 http://deb.debian.org/debian stretch/main amd64 linux-libc-dev amd64 4.9.228-1 [1511 kB] Get:585 http://deb.debian.org/debian stretch/main amd64 libc6-dev amd64 2.24-11+deb9u4 [2364 kB] Get:586 http://deb.debian.org/debian stretch/main amd64 libisl15 amd64 0.18-1 [564 kB] Get:587 http://deb.debian.org/debian stretch/main amd64 libmpc3 amd64 1.0.3-1+b2 [39.9 kB] Get:588 http://deb.debian.org/debian stretch/main amd64 cpp-6 amd64 6.3.0-18+deb9u1 [6584 kB] Get:589 http://deb.debian.org/debian stretch/main amd64 cpp amd64 4:6.3.0-4 [18.7 kB] Get:590 http://deb.debian.org/debian stretch/main amd64 libcc1-0 amd64 6.3.0-18+deb9u1 [30.6 kB] Get:591 http://deb.debian.org/debian stretch/main amd64 libitm1 amd64 6.3.0-18+deb9u1 [27.3 kB] Get:592 http://deb.debian.org/debian stretch/main amd64 libasan3 amd64 6.3.0-18+deb9u1 [311 kB] Get:593 http://deb.debian.org/debian stretch/main amd64 liblsan0 amd64 6.3.0-18+deb9u1 [115 kB] Get:594 http://deb.debian.org/debian stretch/main amd64 libtsan0 amd64 6.3.0-18+deb9u1 [257 kB] Get:595 http://deb.debian.org/debian stretch/main amd64 libubsan0 amd64 6.3.0-18+deb9u1 [107 kB] Get:596 http://deb.debian.org/debian stretch/main amd64 libcilkrts5 amd64 6.3.0-18+deb9u1 [40.5 kB] Get:597 http://deb.debian.org/debian stretch/main amd64 libmpx2 amd64 6.3.0-18+deb9u1 [11.2 kB] Get:598 http://deb.debian.org/debian stretch/main amd64 libgcc-6-dev amd64 6.3.0-18+deb9u1 [2296 kB] Get:599 http://deb.debian.org/debian stretch/main amd64 gcc-6 amd64 6.3.0-18+deb9u1 [6900 kB] Get:600 http://deb.debian.org/debian stretch/main amd64 gcc amd64 4:6.3.0-4 [5196 B] Get:601 http://deb.debian.org/debian stretch/main amd64 libstdc++-6-dev amd64 6.3.0-18+deb9u1 [1420 kB] Get:602 http://deb.debian.org/debian stretch/main amd64 g++-6 amd64 6.3.0-18+deb9u1 [7094 kB] Get:603 http://deb.debian.org/debian stretch/main amd64 g++ amd64 4:6.3.0-4 [1546 B] Get:604 http://deb.debian.org/debian stretch/main amd64 libdpkg-perl all 1.18.25 [1287 kB] Get:605 http://deb.debian.org/debian stretch/main amd64 patch amd64 2.7.5-1+deb9u2 [112 kB] Get:606 http://deb.debian.org/debian stretch/main amd64 dpkg-dev all 1.18.25 [1595 kB] Get:607 http://deb.debian.org/debian stretch/main amd64 build-essential amd64 12.3 [7346 B] Get:608 http://deb.debian.org/debian stretch/main amd64 bwa amd64 0.7.15-2+deb9u1 [194 kB] Get:609 http://deb.debian.org/debian stretch/main amd64 bzip2-doc all 1.0.6-8.1 [307 kB] Get:610 http://deb.debian.org/debian stretch/main amd64 libgflags2v5 amd64 2.1.2-4 [69.1 kB] Get:611 http://deb.debian.org/debian stretch/main amd64 libunwind8 amd64 1.1-4.1 [48.7 kB] Get:612 http://deb.debian.org/debian stretch/main amd64 libgoogle-glog0v5 amd64 0.3.4-2 [51.5 kB] Get:613 http://deb.debian.org/debian stretch/main amd64 libcassie1v5 amd64 1.0.5-1+b1 [38.2 kB] Get:614 http://deb.debian.org/debian stretch/main amd64 cassiopee amd64 1.0.5-1+b1 [13.7 kB] Get:615 http://deb.debian.org/debian stretch/main amd64 cdbfasta amd64 0.99-20100722-3 [55.5 kB] Get:616 http://deb.debian.org/debian stretch/main amd64 cdbs all 0.4.150 [82.6 kB] Get:617 http://deb.debian.org/debian stretch/main amd64 postgresql-client-common all 181+deb9u3 [79.3 kB] Get:618 http://deb.debian.org/debian stretch/main amd64 postgresql-client-9.6 amd64 9.6.17-0+deb9u1 [1282 kB] Get:619 http://deb.debian.org/debian stretch/main amd64 postgresql-client all 9.6+181+deb9u3 [56.0 kB] Get:620 http://deb.debian.org/debian stretch/main amd64 libcarp-clan-perl all 6.06-1 [12.9 kB] Get:621 http://deb.debian.org/debian stretch/main amd64 libparams-classify-perl amd64 0.013-6+b1 [24.4 kB] Get:622 http://deb.debian.org/debian stretch/main amd64 libmodule-runtime-perl all 0.014-2 [18.0 kB] Get:623 http://deb.debian.org/debian stretch/main amd64 libclass-accessor-grouped-perl all 0.10012-1 [24.0 kB] Get:624 http://deb.debian.org/debian stretch/main amd64 libalgorithm-c3-perl all 0.10-1 [12.0 kB] Get:625 http://deb.debian.org/debian stretch/main amd64 libclass-c3-perl all 0.32-1 [22.1 kB] Get:626 http://deb.debian.org/debian stretch/main amd64 libclass-inspector-perl all 1.31-1 [18.7 kB] Get:627 http://deb.debian.org/debian stretch/main amd64 libmro-compat-perl all 0.12-1 [13.2 kB] Get:628 http://deb.debian.org/debian stretch/main amd64 libclass-c3-componentised-perl all 1.001000-1 [14.1 kB] Get:629 http://deb.debian.org/debian stretch/main amd64 libmodule-pluggable-perl all 5.2-1 [25.7 kB] Get:630 http://deb.debian.org/debian stretch/main amd64 libconfig-any-perl all 0.27-1 [31.4 kB] Get:631 http://deb.debian.org/debian stretch/main amd64 libcontext-preserve-perl all 0.01-1 [7224 B] Get:632 http://deb.debian.org/debian stretch/main amd64 libdata-dumper-concise-perl all 2.022-1 [16.4 kB] Get:633 http://deb.debian.org/debian stretch/main amd64 libsub-name-perl amd64 0.21-1 [13.1 kB] Get:634 http://deb.debian.org/debian stretch/main amd64 libclass-accessor-perl all 0.34-1 [25.9 kB] Get:635 http://deb.debian.org/debian stretch/main amd64 libclass-accessor-chained-perl all 0.01.1~debian-4 [8300 B] Get:636 http://deb.debian.org/debian stretch/main amd64 libdata-page-perl all 2.02-1 [12.3 kB] Get:637 http://deb.debian.org/debian stretch/main amd64 libdbi-perl amd64 1.636-1+b1 [766 kB] Get:638 http://deb.debian.org/debian stretch/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:639 http://deb.debian.org/debian stretch/main amd64 libdevel-globaldestruction-perl all 0.14-1 [8084 B] Get:640 http://deb.debian.org/debian stretch/main amd64 libclone-perl amd64 0.38-2+b1 [13.6 kB] Get:641 http://deb.debian.org/debian stretch/main amd64 libhash-merge-perl all 0.200-1 [14.7 kB] Get:642 http://deb.debian.org/debian stretch/main amd64 libmodule-find-perl all 0.13-1 [10.3 kB] Get:643 http://deb.debian.org/debian stretch/main amd64 libclass-method-modifiers-perl all 2.12-1 [18.6 kB] Get:644 http://deb.debian.org/debian stretch/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:645 http://deb.debian.org/debian stretch/main amd64 librole-tiny-perl all 2.000005-1 [19.0 kB] Get:646 http://deb.debian.org/debian stretch/main amd64 libstrictures-perl all 2.000003-1 [18.1 kB] Get:647 http://deb.debian.org/debian stretch/main amd64 libmoo-perl all 2.002005-1 [67.0 kB] Get:648 http://deb.debian.org/debian stretch/main amd64 libtry-tiny-perl all 0.28-1 [22.7 kB] Get:649 http://deb.debian.org/debian stretch/main amd64 libmodule-implementation-perl all 0.09-1 [12.9 kB] Get:650 http://deb.debian.org/debian stretch/main amd64 libvariable-magic-perl amd64 0.61-1 [45.1 kB] Get:651 http://deb.debian.org/debian stretch/main amd64 libb-hooks-endofscope-perl all 0.21-1 [16.3 kB] Get:652 http://deb.debian.org/debian stretch/main amd64 libpackage-stash-perl all 0.37-1 [20.8 kB] Get:653 http://deb.debian.org/debian stretch/main amd64 libsub-identify-perl amd64 0.12-2+b1 [11.5 kB] Get:654 http://deb.debian.org/debian stretch/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:655 http://deb.debian.org/debian stretch/main amd64 libpath-class-perl all 0.37-1 [44.5 kB] Get:656 http://deb.debian.org/debian stretch/main amd64 libscope-guard-perl all 0.21-1 [8356 B] Get:657 http://deb.debian.org/debian stretch/main amd64 libsql-abstract-perl all 1.81-1 [79.2 kB] Get:658 http://deb.debian.org/debian stretch/main amd64 libdbix-class-perl all 0.082840-3 [734 kB] Get:659 http://deb.debian.org/debian stretch/main amd64 libclass-makemethods-perl all 1.01-5 [294 kB] Get:660 http://deb.debian.org/debian stretch/main amd64 libfile-sharedir-perl all 1.102-1 [12.4 kB] Get:661 http://deb.debian.org/debian stretch/main amd64 libexporter-tiny-perl all 0.042-1 [32.4 kB] Get:662 http://deb.debian.org/debian stretch/main amd64 liblist-moreutils-perl amd64 0.416-1+b1 [63.0 kB] Get:663 http://deb.debian.org/debian stretch/main amd64 libpackage-variant-perl all 1.003002-1 [20.9 kB] Get:664 http://deb.debian.org/debian stretch/main amd64 libparse-recdescent-perl all 1.967013+dfsg-1 [159 kB] Get:665 http://deb.debian.org/debian stretch/main amd64 libsql-translator-perl all 0.11021-1 [439 kB] Get:666 http://deb.debian.org/debian stretch/main amd64 libdbd-sqlite3-perl amd64 1.54-1 [164 kB] Get:667 http://deb.debian.org/debian stretch/main amd64 libdbicx-testdatabase-perl all 0.05-1 [10.0 kB] Get:668 http://deb.debian.org/debian stretch/main amd64 libdbix-class-tree-nestedset-perl all 0.10-1 [19.6 kB] Get:669 http://deb.debian.org/debian stretch/main amd64 libbio-chado-schema-perl all 0.20000-1 [118 kB] Get:670 http://deb.debian.org/debian stretch/main amd64 libclass-data-inheritable-perl all 0.08-2 [9296 B] Get:671 http://deb.debian.org/debian stretch/main amd64 libdbix-contextualfetch-perl all 1.03-3 [9056 B] Get:672 http://deb.debian.org/debian stretch/main amd64 libima-dbi-perl all 0.35-2 [23.7 kB] Get:673 http://deb.debian.org/debian stretch/main amd64 libio-stringy-perl all 2.111-2 [61.2 kB] Get:674 http://deb.debian.org/debian stretch/main amd64 libclass-trigger-perl all 0.14-1 [15.5 kB] Get:675 http://deb.debian.org/debian stretch/main amd64 libuniversal-moniker-perl all 0.08-7 [7398 B] Get:676 http://deb.debian.org/debian stretch/main amd64 libclass-dbi-perl all 3.0.17-4 [120 kB] Get:677 http://deb.debian.org/debian stretch/main amd64 libdbd-pg-perl amd64 3.5.3-1+b2 [203 kB] Get:678 http://deb.debian.org/debian stretch/main amd64 libclass-dbi-pg-perl all 0.09-5 [9290 B] Get:679 http://deb.debian.org/debian stretch/main amd64 libxml-namespacesupport-perl all 1.11-1 [14.8 kB] Get:680 http://deb.debian.org/debian stretch/main amd64 libxml-sax-base-perl all 1.07-1 [23.1 kB] Get:681 http://deb.debian.org/debian stretch/main amd64 libxml-sax-perl all 0.99+dfsg-2 [68.3 kB] Get:682 http://deb.debian.org/debian stretch/main amd64 libxml-libxml-perl amd64 2.0128+dfsg-1+deb9u1 [338 kB] Get:683 http://deb.debian.org/debian stretch/main amd64 libxml-libxslt-perl amd64 1.95-1+b1 [46.8 kB] Get:684 http://deb.debian.org/debian stretch/main amd64 liblog-log4perl-perl all 1.48-1+deb9u1 [376 kB] Get:685 http://deb.debian.org/debian stretch/main amd64 libann0 amd64 1.1.2+doc-6 [24.9 kB] Get:686 http://deb.debian.org/debian stretch/main amd64 libcdt5 amd64 2.38.0-17 [59.6 kB] Get:687 http://deb.debian.org/debian stretch/main amd64 libcgraph6 amd64 2.38.0-17 [82.2 kB] Get:688 http://deb.debian.org/debian stretch/main amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4 [158 kB] Get:689 http://deb.debian.org/debian stretch/main amd64 libpathplan4 amd64 2.38.0-17 [62.8 kB] Get:690 http://deb.debian.org/debian stretch/main amd64 libxdot4 amd64 2.38.0-17 [55.6 kB] Get:691 http://deb.debian.org/debian stretch/main amd64 libgvc6 amd64 2.38.0-17 [639 kB] Get:692 http://deb.debian.org/debian stretch/main amd64 libgvpr2 amd64 2.38.0-17 [211 kB] Get:693 http://deb.debian.org/debian stretch/main amd64 graphviz amd64 2.38.0-17 [802 kB] Get:694 http://deb.debian.org/debian stretch/main amd64 libio-pty-perl amd64 1:1.08-1.1+b2 [33.6 kB] Get:695 http://deb.debian.org/debian stretch/main amd64 libipc-run-perl all 0.94-1+deb9u1 [99.1 kB] Get:696 http://deb.debian.org/debian stretch/main amd64 liburi-perl all 1.71-1 [88.6 kB] Get:697 http://deb.debian.org/debian stretch/main amd64 libencode-locale-perl all 1.05-1 [13.7 kB] Get:698 http://deb.debian.org/debian stretch/main amd64 libtimedate-perl all 2.3000-2+deb9u1 [37.9 kB] Get:699 http://deb.debian.org/debian stretch/main amd64 libhttp-date-perl all 6.02-1 [10.7 kB] Get:700 http://deb.debian.org/debian stretch/main amd64 libfile-listing-perl all 6.04-1 [10.3 kB] Get:701 http://deb.debian.org/debian stretch/main amd64 libhtml-tagset-perl all 3.20-3 [12.7 kB] Get:702 http://deb.debian.org/debian stretch/main amd64 libhtml-parser-perl amd64 3.72-3 [104 kB] Get:703 http://deb.debian.org/debian stretch/main amd64 libhtml-tree-perl all 5.03-2 [210 kB] Get:704 http://deb.debian.org/debian stretch/main amd64 libio-html-perl all 1.001-1 [17.6 kB] Get:705 http://deb.debian.org/debian stretch/main amd64 liblwp-mediatypes-perl all 6.02-1 [22.1 kB] Get:706 http://deb.debian.org/debian stretch/main amd64 libhttp-message-perl all 6.11-1 [75.9 kB] Get:707 http://deb.debian.org/debian stretch/main amd64 libhttp-cookies-perl all 6.01-1 [17.4 kB] Get:708 http://deb.debian.org/debian stretch/main amd64 libhttp-negotiate-perl all 6.00-2 [13.6 kB] Get:709 http://deb.debian.org/debian stretch/main amd64 perl-openssl-defaults amd64 3 [6782 B] Get:710 http://deb.debian.org/debian stretch/main amd64 libnet-ssleay-perl amd64 1.80-1 [285 kB] Get:711 http://deb.debian.org/debian stretch/main amd64 libio-socket-ssl-perl all 2.044-1 [195 kB] Get:712 http://deb.debian.org/debian stretch/main amd64 libnet-http-perl all 6.12-1 [23.8 kB] Get:713 http://deb.debian.org/debian stretch/main amd64 liblwp-protocol-https-perl all 6.06-2 [9582 B] Get:714 http://deb.debian.org/debian stretch/main amd64 libwww-robotrules-perl all 6.01-1 [14.3 kB] Get:715 http://deb.debian.org/debian stretch/main amd64 libwww-perl all 6.15-1 [195 kB] Get:716 http://deb.debian.org/debian stretch/main amd64 libxml-parser-perl amd64 2.44-2+b1 [212 kB] Get:717 http://deb.debian.org/debian stretch/main amd64 libxml-twig-perl all 1:3.50-1 [179 kB] Get:718 http://deb.debian.org/debian stretch/main amd64 libscalar-list-utils-perl amd64 1:1.47-1 [54.4 kB] Get:719 http://deb.debian.org/debian stretch/main amd64 libxml-xpath-perl all 1.40-1 [69.2 kB] Get:720 http://deb.debian.org/debian stretch/main amd64 libgraphviz-perl all 2.22-1 [107 kB] Get:721 http://deb.debian.org/debian stretch/main amd64 libyaml-perl all 1.21-1 [64.8 kB] Get:722 http://deb.debian.org/debian stretch/main amd64 libgo-perl all 0.15-5 [268 kB] Get:723 http://deb.debian.org/debian stretch/main amd64 libgd-perl amd64 2.53-3 [177 kB] Get:724 http://deb.debian.org/debian stretch/main amd64 libdigest-md5-file-perl all 0.08-1 [10.6 kB] Get:725 http://deb.debian.org/debian stretch/main amd64 libgraph-perl all 1:0.96-2 [126 kB] Get:726 http://deb.debian.org/debian stretch/main amd64 libxml-perl all 0.08-2 [113 kB] Get:727 http://deb.debian.org/debian stretch/main amd64 libexporter-lite-perl all 0.08-1 [11.1 kB] Get:728 http://deb.debian.org/debian stretch/main amd64 libclass-dbi-pager-perl all 0.08-4 [8398 B] Get:729 http://deb.debian.org/debian stretch/main amd64 libxml-sax-expat-perl all 0.40-2 [12.9 kB] Get:730 http://deb.debian.org/debian stretch/main amd64 libxml-simple-perl all 2.22-1 [71.8 kB] Get:731 http://deb.debian.org/debian stretch/main amd64 libappconfig-perl all 1.66-2 [66.6 kB] Get:732 http://deb.debian.org/debian stretch/main amd64 libtemplate-perl amd64 2.24-1.2+b3 [558 kB] Get:733 http://deb.debian.org/debian stretch/main amd64 libcgi-pm-perl all 4.35-1 [222 kB] Get:734 http://deb.debian.org/debian stretch/main amd64 libcgi-session-perl all 4.48-3 [119 kB] Get:735 http://deb.debian.org/debian stretch/main amd64 libfreezethaw-perl all 0.5001-1 [18.2 kB] Get:736 http://deb.debian.org/debian stretch/main amd64 libdbix-dbschema-perl all 0.45-1 [63.3 kB] Get:737 http://deb.debian.org/debian stretch/main amd64 libdbix-dbstag-perl all 0.12-2 [102 kB] Get:738 http://deb.debian.org/debian stretch/main amd64 libmodule-build-perl all 0.422000-1 [259 kB] Get:739 http://deb.debian.org/debian stretch/main amd64 libchado-perl all 1.31-3 [2287 kB] Get:740 http://deb.debian.org/debian stretch/main amd64 chado-utils all 1.31-3 [133 kB] Get:741 http://deb.debian.org/debian stretch/main amd64 microbiomeutil-data all 20101212+dfsg1-1 [2242 kB] Get:742 http://deb.debian.org/debian stretch/main amd64 chimeraslayer all 20101212+dfsg1-1 [33.5 kB] Get:743 http://deb.debian.org/debian stretch/main amd64 python3-jdcal all 1.0-1.2~deb9u1 [7566 B] Get:744 http://deb.debian.org/debian stretch/main amd64 python3-lxml amd64 3.7.1-1 [900 kB] Get:745 http://deb.debian.org/debian stretch/main amd64 python3-openpyxl all 2.3.0-3 [198 kB] Get:746 http://deb.debian.org/debian stretch/main amd64 prodigal amd64 1:2.6.3-1+b1 [714 kB] Get:747 http://deb.debian.org/debian stretch/main amd64 libhat-trie0 amd64 0.0~git25f9e946-2 [10.7 kB] Get:748 http://deb.debian.org/debian stretch/main amd64 libjemalloc1 amd64 3.6.0-9.1 [89.8 kB] Get:749 http://deb.debian.org/debian stretch/main amd64 libnlopt0 amd64 2.4.2+dfsg-2+b2 [162 kB] Get:750 http://deb.debian.org/debian stretch/main amd64 libssw0 amd64 1.1-1+b1 [16.5 kB] Get:751 http://deb.debian.org/debian stretch/main amd64 python-joblib all 0.10.3+git55-g660fe5d-1 [115 kB] Get:752 http://deb.debian.org/debian stretch/main amd64 libyaml-0-2 amd64 0.1.7-2 [47.6 kB] Get:753 http://deb.debian.org/debian stretch/main amd64 python-yaml amd64 3.12-1 [119 kB] Get:754 http://deb.debian.org/debian stretch/main amd64 spades amd64 3.9.1+dfsg-1 [3450 kB] Get:755 http://deb.debian.org/debian stretch/main amd64 circlator all 1.4.1-1 [4325 kB] Get:756 http://deb.debian.org/debian stretch/main amd64 fonts-circos-symbols all 0.69.4+dfsg-1 [45.8 kB] Get:757 http://deb.debian.org/debian stretch/main amd64 fonts-cmu all 0.7.0-3 [4874 kB] Get:758 http://deb.debian.org/debian stretch/main amd64 libregexp-common-perl all 2016060801-1 [178 kB] Get:759 http://deb.debian.org/debian stretch/main amd64 libcarp-always-perl all 0.12-1 [9142 B] Get:760 http://deb.debian.org/debian stretch/main amd64 libconfig-general-perl all 2.63-1 [70.5 kB] Get:761 http://deb.debian.org/debian stretch/main amd64 libdata-dumper-simple-perl all 0.11-5 [12.9 kB] Get:762 http://deb.debian.org/debian stretch/main amd64 libgetopt-simple-perl all 1.52-5 [14.4 kB] Get:763 http://deb.debian.org/debian stretch/main amd64 libmath-bezier-perl all 0.01-2 [6910 B] Get:764 http://deb.debian.org/debian stretch/main amd64 libmath-round-perl all 0.07-1 [10.6 kB] Get:765 http://deb.debian.org/debian stretch/main amd64 libparams-validate-perl amd64 1.26-1 [66.0 kB] Get:766 http://deb.debian.org/debian stretch/main amd64 libreadonly-perl all 2.050-1 [22.7 kB] Get:767 http://deb.debian.org/debian stretch/main amd64 libset-intspan-perl all 1.19-1 [26.7 kB] Get:768 http://deb.debian.org/debian stretch/main amd64 liblist-someutils-perl all 0.53-1 [42.0 kB] Get:769 http://deb.debian.org/debian stretch/main amd64 liblist-utilsby-perl all 0.10-1 [14.3 kB] Get:770 http://deb.debian.org/debian stretch/main amd64 liblist-allutils-perl all 0.12-1 [31.9 kB] Get:771 http://deb.debian.org/debian stretch/main amd64 libipc-system-simple-perl all 1.25-3 [26.9 kB] Get:772 http://deb.debian.org/debian stretch/main amd64 libfile-basedir-perl all 0.07-1 [17.5 kB] Get:773 http://deb.debian.org/debian stretch/main amd64 libmath-vec-perl all 1.01-3 [17.8 kB] Get:774 http://deb.debian.org/debian stretch/main amd64 libspiffy-perl all 0.41-1 [26.1 kB] Get:775 http://deb.debian.org/debian stretch/main amd64 libio-all-perl all 0.86-2 [73.4 kB] Get:776 http://deb.debian.org/debian stretch/main amd64 libmath-vecstat-perl all 0.08-1 [9148 B] Get:777 http://deb.debian.org/debian stretch/main amd64 libgraphics-colornames-perl all 2.11-7.1 [37.9 kB] Get:778 http://deb.debian.org/debian stretch/main amd64 libgraphics-colorobject-perl all 0.5.0-7.1 [28.2 kB] Get:779 http://deb.debian.org/debian stretch/main amd64 libtext-format-perl all 0.60-1 [20.0 kB] Get:780 http://deb.debian.org/debian stretch/main amd64 libfont-ttf-perl all 1.06-1 [317 kB] Get:781 http://deb.debian.org/debian stretch/main amd64 libnumber-format-perl all 1.75-1 [30.0 kB] Get:782 http://deb.debian.org/debian stretch/main amd64 libstatistics-basic-perl all 1.6611-1 [70.4 kB] Get:783 http://deb.debian.org/debian stretch/main amd64 circos all 0.69.4+dfsg-1 [19.8 MB] Get:784 http://deb.debian.org/debian stretch/main amd64 circos-tools all 0.22-1 [18.7 MB] Get:785 http://deb.debian.org/debian stretch/main amd64 clearcut amd64 1.0.9-1+b1 [283 kB] Get:786 http://deb.debian.org/debian stretch/main amd64 clonalframe amd64 1.2-5 [49.2 kB] Get:787 http://deb.debian.org/debian stretch/main amd64 libargtable2-0 amd64 13-1 [17.4 kB] Get:788 http://deb.debian.org/debian stretch/main amd64 clustalo amd64 1.2.4-1 [263 kB] Get:789 http://deb.debian.org/debian stretch/main amd64 clustalw amd64 2.1+lgpl-5 [286 kB] Get:790 http://deb.debian.org/debian stretch/main amd64 clustalx amd64 2.1+lgpl-5 [455 kB] Get:791 http://deb.debian.org/debian stretch/main amd64 codonw amd64 1.4.4-3+b1 [90.9 kB] Get:792 http://deb.debian.org/debian stretch/main amd64 libgkarrays1 amd64 2.1.0+dfsg-1 [55.0 kB] Get:793 http://deb.debian.org/debian stretch/main amd64 libgzstream0 amd64 1.5+dfsg-2 [6258 B] Get:794 http://deb.debian.org/debian stretch/main amd64 libjellyfish-2.0-2 amd64 2.2.6-1+b1 [62.2 kB] Get:795 http://deb.debian.org/debian stretch/main amd64 crac amd64 2.5.0+dfsg-1 [254 kB] Get:796 http://deb.debian.org/debian stretch/main amd64 libcurl3 amd64 7.52.1-5+deb9u10 [292 kB] Get:797 http://deb.debian.org/debian stretch/main amd64 curl amd64 7.52.1-5+deb9u10 [227 kB] Get:798 http://deb.debian.org/debian stretch/main amd64 python3-xopen all 0.1.1-1 [6072 B] Get:799 http://deb.debian.org/debian stretch/main amd64 python3-cutadapt amd64 1.12-2 [106 kB] Get:800 http://deb.debian.org/debian stretch/main amd64 cutadapt all 1.12-2 [7448 B] Get:801 http://deb.debian.org/debian stretch/main amd64 cython amd64 0.25.2-1 [1863 kB] Get:802 http://deb.debian.org/debian stretch/main amd64 daligner amd64 1.0+20161119-1 [170 kB] Get:803 http://deb.debian.org/debian stretch/main amd64 dascrubber amd64 0~20160601-2 [81.6 kB] Get:804 http://deb.debian.org/debian stretch/main amd64 dawg amd64 1.2-1+b1 [76.9 kB] Get:805 http://deb.debian.org/debian stretch/main amd64 dazzdb amd64 1.0+20161112-2 [150 kB] Get:806 http://deb.debian.org/debian stretch/main amd64 libmatthew-debug-java all 0.8-1 [13.4 kB] Get:807 http://deb.debian.org/debian stretch/main amd64 libunixsocket-java amd64 0.8-1 [15.7 kB] Get:808 http://deb.debian.org/debian stretch/main amd64 libdbus-java all 2.8-6 [150 kB] Get:809 http://deb.debian.org/debian stretch/main amd64 dbus-java-bin all 2.8-6 [74.5 kB] Get:810 http://deb.debian.org/debian stretch/main amd64 libtool all 2.4.6-2 [545 kB] Get:811 http://deb.debian.org/debian stretch/main amd64 dh-autoreconf all 14 [15.9 kB] Get:812 http://deb.debian.org/debian stretch/main amd64 libarchive-zip-perl all 1.59-1+deb9u1 [96.2 kB] Get:813 http://deb.debian.org/debian stretch/main amd64 libfile-stripnondeterminism-perl all 0.034-1 [16.4 kB] Get:814 http://deb.debian.org/debian stretch/main amd64 dh-strip-nondeterminism all 0.034-1 [10.5 kB] Get:815 http://deb.debian.org/debian stretch/main amd64 gettext amd64 0.19.8.1-2+deb9u1 [1496 kB] Get:816 http://deb.debian.org/debian stretch/main amd64 intltool-debian all 0.35.0+20060710.4 [26.3 kB] Get:817 http://deb.debian.org/debian stretch/main amd64 po-debconf all 1.0.20 [247 kB] Get:818 http://deb.debian.org/debian stretch/main amd64 debhelper all 10.2.5 [961 kB] Get:819 http://deb.debian.org/debian stretch/main amd64 dialign amd64 2.2.1-8 [138 kB] Get:820 http://deb.debian.org/debian stretch/main amd64 dialign-tx-data all 1.0.2-9 [869 kB] Get:821 http://deb.debian.org/debian stretch/main amd64 dialign-tx amd64 1.0.2-9 [85.7 kB] Get:822 http://deb.debian.org/debian stretch/main amd64 dindel amd64 1.01+dfsg-4+b1 [333 kB] Get:823 http://deb.debian.org/debian stretch/main amd64 dirmngr amd64 2.1.18-8~deb9u4 [597 kB] Get:824 http://deb.debian.org/debian stretch/main amd64 discosnp amd64 1.2.6-1+b2 [143 kB] Get:825 http://deb.debian.org/debian stretch/main amd64 distro-info-data all 0.36 [5810 B] Get:826 http://deb.debian.org/debian stretch/main amd64 dnaclust amd64 3-4+b2 [85.9 kB] Get:827 http://deb.debian.org/debian stretch/main amd64 xml-core all 0.17 [23.2 kB] Get:828 http://deb.debian.org/debian stretch/main amd64 docutils-common all 0.13.1+dfsg-2 [200 kB] Get:829 http://deb.debian.org/debian stretch/main amd64 docutils-doc all 0.13.1+dfsg-2 [913 kB] Get:830 http://deb.debian.org/debian stretch/main amd64 dssp amd64 2.2.1-3+b2 [265 kB] Get:831 http://deb.debian.org/debian stretch/main amd64 libkpathsea6 amd64 2016.20160513.41080.dfsg-2+deb9u1 [160 kB] Get:832 http://deb.debian.org/debian stretch/main amd64 libptexenc1 amd64 2016.20160513.41080.dfsg-2+deb9u1 [58.0 kB] Get:833 http://deb.debian.org/debian stretch/main amd64 libsynctex1 amd64 2016.20160513.41080.dfsg-2+deb9u1 [64.9 kB] Get:834 http://deb.debian.org/debian stretch/main amd64 libtexlua52 amd64 2016.20160513.41080.dfsg-2+deb9u1 [111 kB] Get:835 http://deb.debian.org/debian stretch/main amd64 libtexluajit2 amd64 2016.20160513.41080.dfsg-2+deb9u1 [250 kB] Get:836 http://deb.debian.org/debian stretch/main amd64 t1utils amd64 1.39-2 [59.0 kB] Get:837 http://deb.debian.org/debian stretch/main amd64 libcupsimage2 amd64 2.2.1-8+deb9u6 [122 kB] Get:838 http://deb.debian.org/debian stretch/main amd64 libijs-0.35 amd64 0.35-12 [18.4 kB] Get:839 http://deb.debian.org/debian stretch/main amd64 libjbig2dec0 amd64 0.13-4.1 [60.1 kB] Get:840 http://deb.debian.org/debian stretch/main amd64 libpaper1 amd64 1.1.24+nmu5 [21.6 kB] Get:841 http://deb.debian.org/debian stretch/main amd64 libgs9-common all 9.26a~dfsg-0+deb9u6 [5143 kB] Get:842 http://deb.debian.org/debian stretch/main amd64 libgs9 amd64 9.26a~dfsg-0+deb9u6 [2213 kB] Get:843 http://deb.debian.org/debian stretch/main amd64 libharfbuzz-icu0 amd64 1.4.2-1 [466 kB] Get:844 http://deb.debian.org/debian stretch/main amd64 libpoppler64 amd64 0.48.0-2+deb9u2 [1287 kB] Get:845 http://deb.debian.org/debian stretch/main amd64 libpotrace0 amd64 1.13-3 [24.9 kB] Get:846 http://deb.debian.org/debian stretch/main amd64 libzzip-0-13 amd64 0.13.62-3.2~deb9u1 [56.1 kB] Get:847 http://deb.debian.org/debian stretch/main amd64 tex-common all 6.06 [566 kB] Get:848 http://deb.debian.org/debian stretch/main amd64 texlive-binaries amd64 2016.20160513.41080.dfsg-2+deb9u1 [7404 kB] Get:849 http://deb.debian.org/debian stretch/main amd64 ghostscript amd64 9.26a~dfsg-0+deb9u6 [99.2 kB] Get:850 http://deb.debian.org/debian stretch/main amd64 dvipng amd64 1.14-2+b3 [86.5 kB] Get:851 http://deb.debian.org/debian stretch/main amd64 dwgsim amd64 0.1.11-3+b1 [38.1 kB] Get:852 http://deb.debian.org/debian stretch/main amd64 zip amd64 3.0-11+b1 [234 kB] Get:853 http://deb.debian.org/debian stretch/main amd64 libpaper-utils amd64 1.1.24+nmu5 [17.6 kB] Get:854 http://deb.debian.org/debian stretch/main amd64 xdg-utils all 1.1.1-1+deb9u2 [71.5 kB] Get:855 http://deb.debian.org/debian stretch/main amd64 r-base-core amd64 3.3.3-1 [21.2 MB] Get:856 http://deb.debian.org/debian stretch/main amd64 r-cran-getopt amd64 1.20.0-2 [24.4 kB] Get:857 http://deb.debian.org/debian stretch/main amd64 r-cran-chron amd64 2.3-49-1 [104 kB] Get:858 http://deb.debian.org/debian stretch/main amd64 r-cran-lattice amd64 0.20-34-1 [713 kB] Get:859 http://deb.debian.org/debian stretch/main amd64 r-cran-cluster amd64 2.0.5-1 [490 kB] Get:860 http://deb.debian.org/debian stretch/main amd64 r-cran-matrix amd64 1.2-7.1-1 [2311 kB] Get:861 http://deb.debian.org/debian stretch/main amd64 r-cran-survival amd64 2.40-1-1 [4863 kB] Get:862 http://deb.debian.org/debian stretch/main amd64 r-cran-formula all 1.2-1-1 [162 kB] Get:863 http://deb.debian.org/debian stretch/main amd64 r-cran-rpart amd64 4.1-10-2 [861 kB] Get:864 http://deb.debian.org/debian stretch/main amd64 r-cran-rcolorbrewer all 1.1-2-1 [26.0 kB] Get:865 http://deb.debian.org/debian stretch/main amd64 r-cran-latticeextra amd64 0.6-28-2 [2059 kB] Get:866 http://deb.debian.org/debian stretch/main amd64 r-cran-acepack amd64 1.4.1-1 [52.5 kB] Get:867 http://deb.debian.org/debian stretch/main amd64 r-cran-digest amd64 0.6.11-1 [112 kB] Get:868 http://deb.debian.org/debian stretch/main amd64 r-cran-gtable all 0.2.0-1 [65.1 kB] Get:869 http://deb.debian.org/debian stretch/main amd64 r-cran-mass amd64 7.3-45-1 [1017 kB] Get:870 http://deb.debian.org/debian stretch/main amd64 r-cran-littler amd64 0.3.1-1 [59.1 kB] Get:871 http://deb.debian.org/debian stretch/main amd64 littler all 0.3.1-1 [11.7 kB] Get:872 http://deb.debian.org/debian stretch/main amd64 r-cran-pkgkitten all 0.1.4-1 [18.7 kB] Get:873 http://deb.debian.org/debian stretch/main amd64 r-cran-rcpp amd64 0.12.9-1 [2168 kB] Get:874 http://deb.debian.org/debian stretch/main amd64 r-cran-plyr amd64 1.8.4-1 [727 kB] Get:875 http://deb.debian.org/debian stretch/main amd64 r-cran-stringi amd64 1.1.2-1 [606 kB] Get:876 http://deb.debian.org/debian stretch/main amd64 r-cran-magrittr amd64 1.5-3 [147 kB] Get:877 http://deb.debian.org/debian stretch/main amd64 r-cran-stringr all 1.1.0-1 [117 kB] Get:878 http://deb.debian.org/debian stretch/main amd64 r-cran-reshape2 amd64 1.4.2-1 [87.5 kB] Get:879 http://deb.debian.org/debian stretch/main amd64 r-cran-dichromat all 2.0.0-3 [146 kB] Get:880 http://deb.debian.org/debian stretch/main amd64 r-cran-colorspace amd64 1.3-2-1 [388 kB] Get:881 http://deb.debian.org/debian stretch/main amd64 r-cran-munsell all 0.4.3-1 [127 kB] Get:882 http://deb.debian.org/debian stretch/main amd64 r-cran-labeling all 0.3-1 [39.9 kB] Get:883 http://deb.debian.org/debian stretch/main amd64 r-cran-scales amd64 0.4.1-1 [200 kB] Get:884 http://deb.debian.org/debian stretch/main amd64 r-cran-assertthat all 0.1-1 [43.3 kB] Get:885 http://deb.debian.org/debian stretch/main amd64 r-cran-lazyeval amd64 0.2.0-1 [112 kB] Get:886 http://deb.debian.org/debian stretch/main amd64 r-cran-tibble amd64 1.2-1 [121 kB] Get:887 http://deb.debian.org/debian stretch/main amd64 r-cran-ggplot2 all 2.2.1-2 [2658 kB] Get:888 http://deb.debian.org/debian stretch/main amd64 r-cran-gridextra all 2.2.1-1 [451 kB] Get:889 http://deb.debian.org/debian stretch/main amd64 r-cran-data.table amd64 1.10.0-1 [1070 kB] Get:890 http://deb.debian.org/debian stretch/main amd64 r-cran-htmltools amd64 0.3.5-2 [115 kB] Get:891 http://deb.debian.org/debian stretch/main amd64 r-cran-evaluate all 0.10-1 [51.5 kB] Get:892 http://deb.debian.org/debian stretch/main amd64 libjs-highlight.js all 8.2+ds-5 [165 kB] Get:893 http://deb.debian.org/debian stretch/main amd64 r-cran-highr all 0.6-1 [30.1 kB] Get:894 http://deb.debian.org/debian stretch/main amd64 fonts-mathjax all 2.7.0-2 [960 kB] Get:895 http://deb.debian.org/debian stretch/main amd64 libjs-mathjax all 2.7.0-2 [5603 kB] Get:896 http://deb.debian.org/debian stretch/main amd64 r-cran-mime amd64 0.5-1 [25.5 kB] Get:897 http://deb.debian.org/debian stretch/main amd64 r-cran-markdown amd64 0.7.7-1 [95.2 kB] Get:898 http://deb.debian.org/debian stretch/main amd64 r-cran-yaml amd64 2.1.14-1 [79.4 kB] Get:899 http://deb.debian.org/debian stretch/main amd64 r-cran-knitr amd64 1.15.1-1 [784 kB] Get:900 http://deb.debian.org/debian stretch/main amd64 r-cran-viridis all 0.3.4-1 [1723 kB] Get:901 http://deb.debian.org/debian stretch/main amd64 r-cran-htmltable all 1.7-2 [153 kB] Get:902 http://deb.debian.org/debian stretch/main amd64 r-cran-base64enc amd64 0.1-3-1 [23.4 kB] Get:903 http://deb.debian.org/debian stretch/main amd64 r-cran-hmisc amd64 4.0-2-1 [1745 kB] Get:904 http://deb.debian.org/debian stretch/main amd64 ea-utils amd64 1.1.2+dfsg-4 [229 kB] Get:905 http://deb.debian.org/debian stretch/main amd64 python3-reportlab-accel amd64 3.3.0-2+deb9u1 [32.1 kB] Get:906 http://deb.debian.org/debian stretch/main amd64 python3-reportlab all 3.3.0-2+deb9u1 [474 kB] Get:907 http://deb.debian.org/debian stretch/main amd64 ecopcr amd64 0.5.0+dfsg-1 [52.5 kB] Get:908 http://deb.debian.org/debian stretch/main amd64 libtmglib3 amd64 3.7.0-2 [130 kB] Get:909 http://deb.debian.org/debian stretch/main amd64 liblapacke amd64 3.7.0-2 [360 kB] Get:910 http://deb.debian.org/debian stretch/main amd64 eigensoft amd64 6.1.4+dfsg-1+b1 [341 kB] Get:911 http://deb.debian.org/debian stretch/main amd64 embassy-domainatrix amd64 0.1.660-1 [61.7 kB] Get:912 http://deb.debian.org/debian stretch/main amd64 embassy-domalign amd64 0.1.660-1 [66.7 kB] Get:913 http://deb.debian.org/debian stretch/main amd64 embassy-domsearch amd64 1:0.1.660-1 [60.6 kB] Get:914 http://deb.debian.org/debian stretch/main amd64 exim4-config all 4.89-2+deb9u7 [377 kB] Get:915 http://deb.debian.org/debian stretch/main amd64 exim4-base amd64 4.89-2+deb9u7 [1094 kB] Get:916 http://deb.debian.org/debian stretch/main amd64 exim4-daemon-light amd64 4.89-2+deb9u7 [542 kB] Get:917 http://deb.debian.org/debian stretch/main amd64 exim4 all 4.89-2+deb9u7 [7860 B] Get:918 http://deb.debian.org/debian stretch/main amd64 exonerate amd64 2.4.0-2 [1476 kB] Get:919 http://deb.debian.org/debian stretch/main amd64 libfakeroot amd64 1.21-3.1 [45.7 kB] Get:920 http://deb.debian.org/debian stretch/main amd64 fakeroot amd64 1.21-3.1 [85.6 kB] Get:921 http://deb.debian.org/debian stretch/main amd64 python-pkg-resources all 33.1.1-1 [166 kB] Get:922 http://deb.debian.org/debian stretch/main amd64 python-networkx all 1.11-2 [822 kB] Get:923 http://deb.debian.org/debian stretch/main amd64 rsync amd64 3.1.2-1+deb9u2 [393 kB] Get:924 http://deb.debian.org/debian stretch/main amd64 time amd64 1.7-25.1+b1 [31.6 kB] Get:925 http://deb.debian.org/debian stretch/main amd64 falcon amd64 1.8.6-1.1 [510 kB] Get:926 http://deb.debian.org/debian stretch/main amd64 libdisorder0 amd64 0.0.2-1 [3962 B] Get:927 http://deb.debian.org/debian stretch/main amd64 libfastahack0 amd64 0.0+20160702-1+b1 [22.1 kB] Get:928 http://deb.debian.org/debian stretch/main amd64 fastahack amd64 0.0+20160702-1+b1 [10.4 kB] Get:929 http://deb.debian.org/debian stretch/main amd64 fastdnaml amd64 1.2.2-11+b1 [60.5 kB] Get:930 http://deb.debian.org/debian stretch/main amd64 fastlink amd64 4.1P-fix100+dfsg-1+b1 [250 kB] Get:931 http://deb.debian.org/debian stretch/main amd64 fastml amd64 3.1-3 [991 kB] Get:932 http://deb.debian.org/debian stretch/main amd64 libcommons-math3-java all 3.6.1-2 [1941 kB] Get:933 http://deb.debian.org/debian stretch/main amd64 libjbzip2-java all 0.9.1-3 [39.9 kB] Get:934 http://deb.debian.org/debian stretch/main amd64 fastqc all 0.11.5+dfsg-6 [375 kB] Get:935 http://deb.debian.org/debian stretch/main amd64 r-mathlib amd64 3.3.3-1 [1567 kB] Get:936 http://deb.debian.org/debian stretch/main amd64 fastqtl amd64 2.184+dfsg-5 [200 kB] Get:937 http://deb.debian.org/debian stretch/main amd64 libgtextutils0v5 amd64 0.7-4 [19.0 kB] Get:938 http://deb.debian.org/debian stretch/main amd64 libgd-text-perl all 0.86-9 [41.4 kB] Get:939 http://deb.debian.org/debian stretch/main amd64 libgd-graph-perl all 1.48-2 [389 kB] Get:940 http://deb.debian.org/debian stretch/main amd64 libperlio-gzip-perl amd64 0.19-1+b2 [17.3 kB] Get:941 http://deb.debian.org/debian stretch/main amd64 fastx-toolkit amd64 0.0.14-3 [90.2 kB] Get:942 http://deb.debian.org/debian stretch/main amd64 junit all 3.8.2-8 [107 kB] Get:943 http://deb.debian.org/debian stretch/main amd64 libnb-org-openide-util-lookup-java all 8.1+dfsg1-5 [80.4 kB] Get:944 http://deb.debian.org/debian stretch/main amd64 libnb-org-openide-util-java all 8.1+dfsg1-5 [167 kB] Get:945 http://deb.debian.org/debian stretch/main amd64 libfreehep-util-java all 2.0.2-6 [46.8 kB] Get:946 http://deb.debian.org/debian stretch/main amd64 libfreehep-swing-java all 2.0.3-4 [188 kB] Get:947 http://deb.debian.org/debian stretch/main amd64 libfreehep-export-java all 2.1.1-3 [20.8 kB] Get:948 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphics2d-java all 2.1.1-5 [121 kB] Get:949 http://deb.debian.org/debian stretch/main amd64 libfreehep-io-java all 2.0.2-5 [59.6 kB] Get:950 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphicsio-java all 2.1.1-4 [170 kB] Get:951 http://deb.debian.org/debian stretch/main amd64 libtablelayout-java all 20090826-3 [44.5 kB] Get:952 http://deb.debian.org/debian stretch/main amd64 libjas-plotter-java all 2.2.6+dfsg1-3 [584 kB] Get:953 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphicsio-tests-java all 2.1.1+dfsg1-4 [99.9 kB] Get:954 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphicsio-emf-java all 2.1.1-emfplus+dfsg1-3 [183 kB] Get:955 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphicsio-pdf-java all 2.1.1+dfsg-2 [71.9 kB] Get:956 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphicsio-ps-java all 2.1.1-2 [46.5 kB] Get:957 http://deb.debian.org/debian stretch/main amd64 libfreehep-xml-java all 2.1.2+dfsg1-4 [131 kB] Get:958 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphicsio-svg-java all 2.1.1-4 [25.1 kB] Get:959 http://deb.debian.org/debian stretch/main amd64 libfreehep-graphicsio-swf-java all 2.1.1+dfsg-2 [155 kB] Get:960 http://deb.debian.org/debian stretch/main amd64 libitext5-java all 5.5.6-2 [2152 kB] Get:961 http://deb.debian.org/debian stretch/main amd64 figtree all 1.4.2+dfsg-2 [948 kB] Get:962 http://deb.debian.org/debian stretch/main amd64 filo amd64 1.1.0-3+b1 [46.3 kB] Get:963 http://deb.debian.org/debian stretch/main amd64 python-pysam amd64 0.10.0+ds-2 [1301 kB] Get:964 http://deb.debian.org/debian stretch/main amd64 fitgcp amd64 0.0.20150429-1 [12.3 kB] Get:965 http://deb.debian.org/debian stretch/main amd64 flexbar amd64 2.50-2+b1 [257 kB] Get:966 http://deb.debian.org/debian stretch/main amd64 fml-asm amd64 0.1-2+b1 [66.8 kB] Get:967 http://deb.debian.org/debian stretch/main amd64 fonts-cabin all 1.5-2 [139 kB] Get:968 http://deb.debian.org/debian stretch/main amd64 fonts-comfortaa all 2.003-1 [133 kB] Get:969 http://deb.debian.org/debian stretch/main amd64 fonts-croscore all 20161116-1 [2138 kB] Get:970 http://deb.debian.org/debian stretch/main amd64 fonts-crosextra-caladea all 20130214-1 [82.1 kB] Get:971 http://deb.debian.org/debian stretch/main amd64 fonts-crosextra-carlito all 20130920-1 [745 kB] Get:972 http://deb.debian.org/debian stretch/main amd64 fonts-dejavu-extra all 2.37-1 [1982 kB] Get:973 http://deb.debian.org/debian stretch/main amd64 fonts-dejavu all 2.37-1 [32.3 kB] Get:974 http://deb.debian.org/debian stretch/main amd64 fonts-ebgaramond all 0.016-1 [475 kB] Get:975 http://deb.debian.org/debian stretch/main amd64 fonts-ebgaramond-extra all 0.016-1 [2157 kB] Get:976 http://deb.debian.org/debian stretch/main amd64 fonts-font-awesome all 4.7.0~dfsg-1 [514 kB] Get:977 http://deb.debian.org/debian stretch/main amd64 fonts-freefont-otf all 20120503-6 [3168 kB] Get:978 http://deb.debian.org/debian stretch/main amd64 fonts-freefont-ttf all 20120503-6 [4316 kB] Get:979 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-artemisia all 1.1-5 [259 kB] Get:980 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-complutum all 1.1-6 [41.6 kB] Get:981 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-didot all 1.1-6 [278 kB] Get:982 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-neohellenic all 1.1-6 [215 kB] Get:983 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-olga all 1.1-5 [33.2 kB] Get:984 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-solomos all 1.1-5 [40.6 kB] Get:985 http://deb.debian.org/debian stretch/main amd64 fonts-junicode all 0.7.8-2 [643 kB] Get:986 http://deb.debian.org/debian stretch/main amd64 fonts-linuxlibertine all 5.3.0-2 [1713 kB] Get:987 http://deb.debian.org/debian stretch/main amd64 fonts-lmodern all 2.004.5-3 [4540 kB] Get:988 http://deb.debian.org/debian stretch/main amd64 fonts-lobster all 2.0-2 [39.5 kB] Get:989 http://deb.debian.org/debian stretch/main amd64 fonts-lobstertwo all 2.0-2 [94.0 kB] Get:990 http://deb.debian.org/debian stretch/main amd64 fonts-noto-hinted all 20161116-1 [5075 kB] Get:991 http://deb.debian.org/debian stretch/main amd64 fonts-noto-mono all 20161116-1 [79.2 kB] Get:992 http://deb.debian.org/debian stretch/main amd64 fonts-oflb-asana-math all 000.907-6 [245 kB] Get:993 http://deb.debian.org/debian stretch/main amd64 fonts-roboto-hinted all 2:0~20160106-2 [2922 kB] Get:994 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentium all 20081126:1.03-1 [251 kB] Get:995 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentium-basic all 1.1-7 [382 kB] Get:996 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentiumplus all 5.000-1 [2811 kB] Get:997 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentiumplus-compact all 5.000-2 [1522 kB] Get:998 http://deb.debian.org/debian stretch/main amd64 fonts-texgyre all 20160520-1 [8761 kB] Get:999 http://deb.debian.org/debian stretch/main amd64 libavalon-framework-java all 4.2.0-9 [70.6 kB] Get:1000 http://deb.debian.org/debian stretch/main amd64 libfontbox-java all 1:1.8.12-1 [205 kB] Get:1001 http://deb.debian.org/debian stretch/main amd64 libfop-java all 1:2.1-6 [9459 kB] Get:1002 http://deb.debian.org/debian stretch/main amd64 fop all 1:2.1-6 [22.9 kB] Get:1003 http://deb.debian.org/debian stretch/main amd64 freeglut3 amd64 2.8.1-3 [123 kB] Get:1004 http://deb.debian.org/debian stretch/main amd64 fsa amd64 1.15.9+dfsg-3 [753 kB] Get:1005 http://deb.debian.org/debian stretch/main amd64 libsdsl3 amd64 2.0.3-4 [194 kB] Get:1006 http://deb.debian.org/debian stretch/main amd64 fsm-lite amd64 1.0-2 [86.4 kB] Get:1007 http://deb.debian.org/debian stretch/main amd64 ttf-dejavu-core all 2.37-1 [32.1 kB] Get:1008 http://deb.debian.org/debian stretch/main amd64 ttf-dejavu-extra all 2.37-1 [32.2 kB] Get:1009 http://deb.debian.org/debian stretch/main amd64 ttf-dejavu all 2.37-1 [32.0 kB] Get:1010 http://deb.debian.org/debian stretch/main amd64 libpangox-1.0-0 amd64 0.0.2-5+b2 [42.3 kB] Get:1011 http://deb.debian.org/debian stretch/main amd64 libgtkglext1 amd64 1.2.0-4 [90.3 kB] Get:1012 http://deb.debian.org/debian stretch/main amd64 gamgi amd64 0.17.1-1+b1 [734 kB] Get:1013 http://deb.debian.org/debian stretch/main amd64 libncl1 amd64 2.1.18+dfsg-2+b1 [355 kB] Get:1014 http://deb.debian.org/debian stretch/main amd64 garli amd64 2.1-1 [571 kB] Get:1015 http://deb.debian.org/debian stretch/main amd64 garlic amd64 1.6-1.1+b2 [231 kB] Get:1016 http://deb.debian.org/debian stretch/main amd64 python-reportlab-accel amd64 3.3.0-2+deb9u1 [36.8 kB] Get:1017 http://deb.debian.org/debian stretch/main amd64 python-reportlab all 3.3.0-2+deb9u1 [478 kB] Get:1018 http://deb.debian.org/debian stretch/main amd64 python-biopython amd64 1.68+dfsg-3 [1201 kB] Get:1019 http://deb.debian.org/debian stretch/main amd64 bowtie amd64 1.1.2-6 [1618 kB] Get:1020 http://deb.debian.org/debian stretch/main amd64 seqan-apps amd64 2.3.1+dfsg-4 [11.5 MB] Get:1021 http://deb.debian.org/debian stretch/main amd64 gasic amd64 0.0.r19-1 [19.9 kB] Get:1022 http://deb.debian.org/debian stretch/main amd64 libbio-graphics-perl all 2.40-1 [611 kB] Get:1023 http://deb.debian.org/debian stretch/main amd64 libbio-coordinate-perl all 1.7.1-1 [56.0 kB] Get:1024 http://deb.debian.org/debian stretch/main amd64 libjson-perl all 2.90-1 [86.0 kB] Get:1025 http://deb.debian.org/debian stretch/main amd64 libstatistics-descriptive-perl all 3.0612-1 [41.9 kB] Get:1026 http://deb.debian.org/debian stretch/main amd64 libhttp-daemon-perl all 6.01-1 [17.3 kB] Get:1027 http://deb.debian.org/debian stretch/main amd64 sqlite3 amd64 3.16.2-5+deb9u1 [784 kB] Get:1028 http://deb.debian.org/debian stretch/main amd64 libjs-prototype all 1.7.1-3 [44.3 kB] Get:1029 http://deb.debian.org/debian stretch/main amd64 libjs-scriptaculous all 1.9.0-2 [129 kB] Get:1030 http://deb.debian.org/debian stretch/main amd64 libanyevent-perl amd64 7.130-2 [391 kB] Get:1031 http://deb.debian.org/debian stretch/main amd64 libanyevent-cachedns-perl all 0.08-2 [7150 B] Get:1032 http://deb.debian.org/debian stretch/main amd64 libcommon-sense-perl amd64 3.74-2 [23.6 kB] Get:1033 http://deb.debian.org/debian stretch/main amd64 libanyevent-http-perl all 2.23-1 [34.6 kB] Get:1034 http://deb.debian.org/debian stretch/main amd64 libstring-approx-perl amd64 3.27-1+b4 [40.0 kB] Get:1035 http://deb.debian.org/debian stretch/main amd64 libvm-ec2-perl all 1.28-2 [768 kB] Get:1036 http://deb.debian.org/debian stretch/main amd64 gbrowse all 2.56+dfsg-2 [2373 kB] Get:1037 http://deb.debian.org/debian stretch/main amd64 gdpc amd64 2.2.5-6 [33.8 kB] Get:1038 http://deb.debian.org/debian stretch/main amd64 genometools amd64 1.5.9+ds-4 [1903 kB] Get:1039 http://deb.debian.org/debian stretch/main amd64 libtinyxml2.6.2v5 amd64 2.6.2-4 [36.8 kB] Get:1040 http://deb.debian.org/debian stretch/main amd64 gentle amd64 1.9+cvs20100605+dfsg1-5 [3874 kB] Get:1041 http://deb.debian.org/debian stretch/main amd64 gff2aplot amd64 2.0-8+b1 [311 kB] Get:1042 http://deb.debian.org/debian stretch/main amd64 gff2ps all 0.98d-5 [44.6 kB] Get:1043 http://deb.debian.org/debian stretch/main amd64 libgfortran-6-dev amd64 6.3.0-18+deb9u1 [299 kB] Get:1044 http://deb.debian.org/debian stretch/main amd64 gfortran-6 amd64 6.3.0-18+deb9u1 [6916 kB] Get:1045 http://deb.debian.org/debian stretch/main amd64 gfortran amd64 4:6.3.0-4 [1356 B] Get:1046 http://deb.debian.org/debian stretch/main amd64 libsc-data all 2.3.1-18+deb9u1 [119 kB] Get:1047 http://deb.debian.org/debian stretch/main amd64 openmpi-common all 2.0.2-2 [149 kB] Get:1048 http://deb.debian.org/debian stretch/main amd64 openmpi-bin amd64 2.0.2-2 [186 kB] Get:1049 http://deb.debian.org/debian stretch/main amd64 mpi-default-bin amd64 1.8 [4050 B] Get:1050 http://deb.debian.org/debian stretch/main amd64 libint1 amd64 1.1.6-2+b1 [2705 kB] Get:1051 http://deb.debian.org/debian stretch/main amd64 libsc7v5 amd64 2.3.1-18+deb9u1 [2320 kB] Get:1052 http://deb.debian.org/debian stretch/main amd64 mpqc amd64 2.3.1-18+deb9u1 [90.1 kB] Get:1053 http://deb.debian.org/debian stretch/main amd64 libmopac7-1gf amd64 1.15-6+b1 [476 kB] Get:1054 http://deb.debian.org/debian stretch/main amd64 libghemical-data all 3.0.0-4.1 [109 kB] Get:1055 http://deb.debian.org/debian stretch/main amd64 libghemical5v5 amd64 3.0.0-4.1+b3 [374 kB] Get:1056 http://deb.debian.org/debian stretch/main amd64 liboglappth2 amd64 1.0.0-2 [34.0 kB] Get:1057 http://deb.debian.org/debian stretch/main amd64 libopenbabel4v5 amd64 2.3.2+dfsg-3 [2848 kB] Get:1058 http://deb.debian.org/debian stretch/main amd64 ghemical amd64 3.0.0-2 [1819 kB] Get:1059 http://deb.debian.org/debian stretch/main amd64 libsuitesparseconfig4 amd64 1:4.5.4-1 [18.8 kB] Get:1060 http://deb.debian.org/debian stretch/main amd64 libamd2 amd64 1:4.5.4-1 [36.3 kB] Get:1061 http://deb.debian.org/debian stretch/main amd64 libcolamd2 amd64 1:4.5.4-1 [28.5 kB] Get:1062 http://deb.debian.org/debian stretch/main amd64 libglpk40 amd64 4.61-1 [396 kB] Get:1063 http://deb.debian.org/debian stretch/main amd64 libglpk-java amd64 1.7.0-1 [776 kB] Get:1064 http://deb.debian.org/debian stretch/main amd64 glpk-utils amd64 4.61-1 [151 kB] Get:1065 http://deb.debian.org/debian stretch/main amd64 tophat amd64 2.1.1+dfsg-2+b2 [755 kB] Get:1066 http://deb.debian.org/debian stretch/main amd64 giira amd64 0.0.20140625-1 [144 kB] Get:1067 http://deb.debian.org/debian stretch/main amd64 glam2 amd64 1064-3+b1 [240 kB] Get:1068 http://deb.debian.org/debian stretch/main amd64 gnustep-base-runtime amd64 1.24.9-3.1+deb9u1 [190 kB] Get:1069 http://deb.debian.org/debian stretch/main amd64 libobjc-6-dev amd64 6.3.0-18+deb9u1 [196 kB] Get:1070 http://deb.debian.org/debian stretch/main amd64 gobjc-6 amd64 6.3.0-18+deb9u1 [6372 kB] Get:1071 http://deb.debian.org/debian stretch/main amd64 gobjc amd64 4:6.3.0-4 [910 B] Get:1072 http://deb.debian.org/debian stretch/main amd64 gnustep-make all 2.6.8-2.1 [229 kB] Get:1073 http://deb.debian.org/debian stretch/main amd64 graphlan all 1.1-2 [2463 kB] Get:1074 http://deb.debian.org/debian stretch/main amd64 libgetopt-euclid-perl all 0.4.5-2 [47.4 kB] Get:1075 http://deb.debian.org/debian stretch/main amd64 libmath-random-mt-perl amd64 1.17-1+b2 [15.2 kB] Get:1076 http://deb.debian.org/debian stretch/main amd64 grinder all 0.5.4-1 [79.5 kB] Get:1077 http://deb.debian.org/debian stretch/main amd64 gsfonts all 1:8.11+urwcyr1.0.7~pre44-4.3 [3126 kB] Get:1078 http://deb.debian.org/debian stretch/main amd64 libopus0 amd64 1.2~alpha2-1 [171 kB] Get:1079 http://deb.debian.org/debian stretch/main amd64 libtheora0 amd64 1.1.1+dfsg.1-14+b1 [177 kB] Get:1080 http://deb.debian.org/debian stretch/main amd64 libvisual-0.4-0 amd64 0.4.0-10 [132 kB] Get:1081 http://deb.debian.org/debian stretch/main amd64 gstreamer1.0-plugins-base amd64 1.10.4-1+deb9u1 [1497 kB] Get:1082 http://deb.debian.org/debian stretch/main amd64 python3-numpy amd64 1:1.12.1-3 [1934 kB] Get:1083 http://deb.debian.org/debian stretch/main amd64 python3-biopython amd64 1.68+dfsg-3 [1163 kB] Get:1084 http://deb.debian.org/debian stretch/main amd64 python3-nose all 1.3.7-2 [132 kB] Get:1085 http://deb.debian.org/debian stretch/main amd64 fasttree amd64 2.1.9-1 [132 kB] Get:1086 http://deb.debian.org/debian stretch/main amd64 raxml amd64 8.2.9+dfsg-1+b1 [1278 kB] Get:1087 http://deb.debian.org/debian stretch/main amd64 gubbins amd64 2.2.0-1 [53.1 kB] Get:1088 http://deb.debian.org/debian stretch/main amd64 guile-2.0-libs amd64 2.0.13+1-4 [2232 kB] Get:1089 http://deb.debian.org/debian stretch/main amd64 gwama amd64 2.2.2+dfsg-1 [82.3 kB] Get:1090 http://deb.debian.org/debian stretch/main amd64 harvest-tools amd64 1.3-1 [134 kB] Get:1091 http://deb.debian.org/debian stretch/main amd64 hdf5-helpers amd64 1.10.0-patch1+docs-3+deb9u1 [36.0 kB] Get:1092 http://deb.debian.org/debian stretch/main amd64 hdf5-tools amd64 1.10.0-patch1+docs-3+deb9u1 [405 kB] Get:1093 http://deb.debian.org/debian stretch/main amd64 hilive amd64 0.3-2 [291 kB] Get:1094 http://deb.debian.org/debian stretch/main amd64 hisat2 amd64 2.0.5-1 [1245 kB] Get:1095 http://deb.debian.org/debian stretch/main amd64 libpvm3 amd64 3.4.6-1+b2 [89.6 kB] Get:1096 http://deb.debian.org/debian stretch/main amd64 hmmer2 amd64 2.3.2-13 [2653 kB] Get:1097 http://deb.debian.org/debian stretch/main amd64 hyphy-common all 2.2.7+dfsg-1 [619 kB] Get:1098 http://deb.debian.org/debian stretch/main amd64 hyphy-mpi amd64 2.2.7+dfsg-1+b2 [920 kB] Get:1099 http://deb.debian.org/debian stretch/main amd64 libpangoxft-1.0-0 amd64 1.40.5-1 [187 kB] Get:1100 http://deb.debian.org/debian stretch/main amd64 hyphygui amd64 2.2.7+dfsg-1+b2 [1487 kB] Get:1101 http://deb.debian.org/debian stretch/main amd64 icc-profiles-free all 2.0.1+dfsg-1 [552 kB] Get:1102 http://deb.debian.org/debian stretch/main amd64 icu-devtools amd64 57.1-6+deb9u4 [178 kB] Get:1103 http://deb.debian.org/debian stretch/main amd64 idba amd64 1.1.3-1 [231 kB] Get:1104 http://deb.debian.org/debian stretch/main amd64 imagemagick-6.q16 amd64 8:6.9.7.4+dfsg-11+deb9u8 [563 kB] Get:1105 http://deb.debian.org/debian stretch/main amd64 imagemagick amd64 8:6.9.7.4+dfsg-11+deb9u8 [141 kB] Get:1106 http://deb.debian.org/debian stretch/main amd64 indelible amd64 1.03-2+b1 [367 kB] Get:1107 http://deb.debian.org/debian stretch/main amd64 infernal amd64 1.1.2-1 [22.0 MB] Get:1108 http://deb.debian.org/debian stretch/main amd64 info amd64 6.3.0.dfsg.1-1+b2 [390 kB] Get:1109 http://deb.debian.org/debian stretch/main amd64 ipig amd64 0.0.r5-2 [166 kB] Get:1110 http://deb.debian.org/debian stretch/main amd64 python-ptyprocess all 0.5.1-1 [12.5 kB] Get:1111 http://deb.debian.org/debian stretch/main amd64 python-pexpect all 4.2.1-1 [47.9 kB] Get:1112 http://deb.debian.org/debian stretch/main amd64 python-pathlib2 all 2.2.0+really2.1.0-1 [16.5 kB] Get:1113 http://deb.debian.org/debian stretch/main amd64 python-pickleshare all 0.7.4-1 [6736 B] Get:1114 http://deb.debian.org/debian stretch/main amd64 python-wcwidth all 0.1.7+dfsg1-1 [14.6 kB] Get:1115 http://deb.debian.org/debian stretch/main amd64 python-prompt-toolkit all 1.0.9-1 [174 kB] Get:1116 http://deb.debian.org/debian stretch/main amd64 python-pygments all 2.2.0+dfsg-1 [590 kB] Get:1117 http://deb.debian.org/debian stretch/main amd64 python-simplegeneric all 0.8.1-1 [11.9 kB] Get:1118 http://deb.debian.org/debian stretch/main amd64 python-ipython-genutils all 0.1.0-2 [20.7 kB] Get:1119 http://deb.debian.org/debian stretch/main amd64 python-enum34 all 1.1.6-1 [35.0 kB] Get:1120 http://deb.debian.org/debian stretch/main amd64 python-traitlets all 4.3.1-1 [60.6 kB] Get:1121 http://deb.debian.org/debian stretch/main amd64 python-backports-shutil-get-terminal-size all 1.0.0-3 [4656 B] Get:1122 http://deb.debian.org/debian stretch/main amd64 python-ipython all 5.1.0-3 [375 kB] Get:1123 http://deb.debian.org/debian stretch/main amd64 ipython all 5.1.0-3 [5496 B] Get:1124 http://deb.debian.org/debian stretch/main amd64 python3-decorator all 4.0.11-1 [13.3 kB] Get:1125 http://deb.debian.org/debian stretch/main amd64 python3-ptyprocess all 0.5.1-1 [12.6 kB] Get:1126 http://deb.debian.org/debian stretch/main amd64 python3-pexpect all 4.2.1-1 [48.6 kB] Get:1127 http://deb.debian.org/debian stretch/main amd64 python3-pickleshare all 0.7.4-1 [6808 B] Get:1128 http://deb.debian.org/debian stretch/main amd64 python3-six all 1.10.0-3 [14.4 kB] Get:1129 http://deb.debian.org/debian stretch/main amd64 python3-wcwidth all 0.1.7+dfsg1-1 [14.7 kB] Get:1130 http://deb.debian.org/debian stretch/main amd64 python3-prompt-toolkit all 1.0.9-1 [174 kB] Get:1131 http://deb.debian.org/debian stretch/main amd64 python3-pygments all 2.2.0+dfsg-1 [588 kB] Get:1132 http://deb.debian.org/debian stretch/main amd64 python3-simplegeneric all 0.8.1-1 [11.4 kB] Get:1133 http://deb.debian.org/debian stretch/main amd64 python3-ipython-genutils all 0.1.0-2 [20.8 kB] Get:1134 http://deb.debian.org/debian stretch/main amd64 python3-traitlets all 4.3.1-1 [60.6 kB] Get:1135 http://deb.debian.org/debian stretch/main amd64 python3-ipython all 5.1.0-3 [375 kB] Get:1136 http://deb.debian.org/debian stretch/main amd64 ipython3 all 5.1.0-3 [5510 B] Get:1137 http://deb.debian.org/debian stretch/main amd64 iqtree amd64 1.5.3+dfsg-2 [2489 kB] Get:1138 http://deb.debian.org/debian stretch/main amd64 isympy-common all 1.0-3 [189 kB] Get:1139 http://deb.debian.org/debian stretch/main amd64 python-mpmath all 0.19-3 [402 kB] Get:1140 http://deb.debian.org/debian stretch/main amd64 python-sympy all 1.0-3 [2367 kB] Get:1141 http://deb.debian.org/debian stretch/main amd64 isympy all 1.0-3 [6828 B] Get:1142 http://deb.debian.org/debian stretch/main amd64 python3-networkx all 1.11-2 [624 kB] Get:1143 http://deb.debian.org/debian stretch/main amd64 kmc amd64 2.3+dfsg-5 [467 kB] Get:1144 http://deb.debian.org/debian stretch/main amd64 libbambamc0 amd64 0.0.50-1 [35.4 kB] Get:1145 http://deb.debian.org/debian stretch/main amd64 smalt amd64 0.7.6-6 [112 kB] Get:1146 http://deb.debian.org/debian stretch/main amd64 iva amd64 1.0.8+ds-1 [8577 kB] Get:1147 http://deb.debian.org/debian stretch/main amd64 jaligner all 1.0+dfsg-4 [128 kB] Get:1148 http://deb.debian.org/debian stretch/main amd64 javascript-common all 11 [6120 B] Get:1149 http://deb.debian.org/debian stretch/main amd64 jellyfish amd64 2.2.6-1+b1 [349 kB] Get:1150 http://deb.debian.org/debian stretch/main amd64 libpal-java all 1.5.1+dfsg-2 [656 kB] Get:1151 http://deb.debian.org/debian stretch/main amd64 jmodeltest all 2.1.10+dfsg-5 [981 kB] Get:1152 http://deb.debian.org/debian stretch/main amd64 icedtea-netx-common all 1.6.2-3.1+deb9u1 [1383 kB] Get:1153 http://deb.debian.org/debian stretch/main amd64 libnaga-java all 3.0+svn80-1 [379 kB] Get:1154 http://deb.debian.org/debian stretch/main amd64 libjmol-java all 14.6.4+2016.11.05+dfsg1-3 [6391 kB] Get:1155 http://deb.debian.org/debian stretch/main amd64 jmol all 14.6.4+2016.11.05+dfsg1-3 [70.9 kB] Get:1156 http://deb.debian.org/debian stretch/main amd64 kalign amd64 1:2.03+20110620-3 [99.7 kB] Get:1157 http://deb.debian.org/debian stretch/main amd64 libjs-underscore all 1.8.3~dfsg-1 [63.8 kB] Get:1158 http://deb.debian.org/debian stretch/main amd64 libjs-sphinxdoc all 1.4.9-2 [69.5 kB] Get:1159 http://deb.debian.org/debian stretch/main amd64 khmer-common all 2.0+dfsg-10 [244 kB] Get:1160 http://deb.debian.org/debian stretch/main amd64 python3-bz2file all 0.98-1 [7714 B] Get:1161 http://deb.debian.org/debian stretch/main amd64 python3-screed all 0.9-2 [71.5 kB] Get:1162 http://deb.debian.org/debian stretch/main amd64 khmer amd64 2.0+dfsg-10 [5980 kB] Get:1163 http://deb.debian.org/debian stretch/main amd64 python-h5py amd64 2.7.0-1 [634 kB] Get:1164 http://deb.debian.org/debian stretch/main amd64 python-avro all 1.8.1+dfsg-1 [58.1 kB] Get:1165 http://deb.debian.org/debian stretch/main amd64 python-iso8601 all 0.1.11-1 [12.7 kB] Get:1166 http://deb.debian.org/debian stretch/main amd64 python-urllib3 all 1.19.1-1 [77.5 kB] Get:1167 http://deb.debian.org/debian stretch/main amd64 python-chardet all 2.3.0-2 [96.0 kB] Get:1168 http://deb.debian.org/debian stretch/main amd64 python-requests all 2.12.4-1 [101 kB] Get:1169 http://deb.debian.org/debian stretch/main amd64 python-pbcommand all 0.5.3-1 [79.6 kB] Get:1170 http://deb.debian.org/debian stretch/main amd64 python-pbcore all 1.2.11+dfsg-1 [9087 kB] Get:1171 http://deb.debian.org/debian stretch/main amd64 kineticstools-data all 0.6.1+20161222-1 [102 MB] Get:1172 http://deb.debian.org/debian stretch/main amd64 python-kineticstools amd64 0.6.1+20161222-1 [49.3 kB] Get:1173 http://deb.debian.org/debian stretch/main amd64 kineticstools all 0.6.1+20161222-1 [13.3 kB] Get:1174 http://deb.debian.org/debian stretch/main amd64 king-probe amd64 2.13.110909-2 [86.5 kB] Get:1175 http://deb.debian.org/debian stretch/main amd64 kissplice amd64 2.4.0-p1-1 [781 kB] Get:1176 http://deb.debian.org/debian stretch/main amd64 sim4db amd64 0~20150903+r2013-3 [440 kB] Get:1177 http://deb.debian.org/debian stretch/main amd64 kmer all 0~20150903+r2013-3 [4266 B] Get:1178 http://deb.debian.org/debian stretch/main amd64 kraken amd64 0.10.5~beta-2+b1 [81.3 kB] Get:1179 http://deb.debian.org/debian stretch/main amd64 ksh amd64 93u+20120801-3.1 [890 kB] Get:1180 http://deb.debian.org/debian stretch/main amd64 lambda-align amd64 1.0.1-2 [1057 kB] Get:1181 http://deb.debian.org/debian stretch/main amd64 laptop-detect amd64 0.13.8 [6162 B] Get:1182 http://deb.debian.org/debian stretch/main amd64 libsensors4 amd64 1:3.4.0-4 [53.3 kB] Get:1183 http://deb.debian.org/debian stretch/main amd64 sysstat amd64 11.4.3-2 [360 kB] Get:1184 http://deb.debian.org/debian stretch/main amd64 parallel all 20161222-1 [307 kB] Get:1185 http://deb.debian.org/debian stretch/main amd64 last-align amd64 830-1 [725 kB] Get:1186 http://deb.debian.org/debian stretch/main amd64 lefse all 1.0+20160802-1 [44.6 kB] Get:1187 http://deb.debian.org/debian stretch/main amd64 liberror-perl all 0.17024-1 [26.9 kB] Get:1188 http://deb.debian.org/debian stretch/main amd64 libipc-sharelite-perl amd64 0.17-4 [24.0 kB] Get:1189 http://deb.debian.org/debian stretch/main amd64 libcache-cache-perl all 1.08-2 [76.6 kB] Get:1190 http://deb.debian.org/debian stretch/main amd64 libace-perl amd64 1.92-4+b1 [286 kB] Get:1191 http://deb.debian.org/debian stretch/main amd64 libfann2 amd64 2.2.0+ds-3 [66.1 kB] Get:1192 http://deb.debian.org/debian stretch/main amd64 libai-fann-perl amd64 0.10-3+b2 [28.4 kB] Get:1193 http://deb.debian.org/debian stretch/main amd64 libalgorithm-diff-perl all 1.19.03-1 [48.7 kB] Get:1194 http://deb.debian.org/debian stretch/main amd64 libalgorithm-diff-xs-perl amd64 0.04-4+b2 [11.6 kB] Get:1195 http://deb.debian.org/debian stretch/main amd64 libalgorithm-merge-perl all 0.08-3 [12.7 kB] Get:1196 http://deb.debian.org/debian stretch/main amd64 libalgorithm-munkres-perl all 0.08-3 [12.1 kB] Get:1197 http://deb.debian.org/debian stretch/main amd64 libdevel-symdump-perl all 2.17-1 [17.0 kB] Get:1198 http://deb.debian.org/debian stretch/main amd64 libapache2-mod-perl2 amd64 2.0.10-2+deb9u1 [886 kB] Get:1199 http://deb.debian.org/debian stretch/main amd64 libapache-dbi-perl all 1.12-1 [54.6 kB] Get:1200 http://deb.debian.org/debian stretch/main amd64 libposix-strftime-compiler-perl all 0.42-1 [11.7 kB] Get:1201 http://deb.debian.org/debian stretch/main amd64 libapache-logformat-compiler-perl all 0.33-2 [11.4 kB] Get:1202 http://deb.debian.org/debian stretch/main amd64 libapache2-reload-perl all 0.13-1 [17.4 kB] Get:1203 http://deb.debian.org/debian stretch/main amd64 liblzo2-2 amd64 2.08-1.2+b2 [55.0 kB] Get:1204 http://deb.debian.org/debian stretch/main amd64 libarchive13 amd64 3.2.2-2+deb9u2 [294 kB] Get:1205 http://deb.debian.org/debian stretch/main amd64 libarpack2 amd64 3.4.0-1+b1 [96.1 kB] Get:1206 http://deb.debian.org/debian stretch/main amd64 libsuperlu5 amd64 5.2.1+dfsg1-2 [160 kB] Get:1207 http://deb.debian.org/debian stretch/main amd64 libarmadillo7 amd64 1:7.600.2+dfsg-2 [81.8 kB] Get:1208 http://deb.debian.org/debian stretch/main amd64 libtype-tiny-perl all 1.000005-1 [271 kB] Get:1209 http://deb.debian.org/debian stretch/main amd64 libarray-compare-perl all 3.0.0-1 [14.0 kB] Get:1210 http://deb.debian.org/debian stretch/main amd64 libarray-utils-perl all 0.5-1 [6254 B] Get:1211 http://deb.debian.org/debian stretch/main amd64 libasa-perl all 1.03-1 [9564 B] Get:1212 http://deb.debian.org/debian stretch/main amd64 libasync-interrupt-perl amd64 1.21-1+b2 [33.9 kB] Get:1213 http://deb.debian.org/debian stretch/main amd64 libauthen-sasl-perl all 2.1600-1 [50.8 kB] Get:1214 http://deb.debian.org/debian stretch/main amd64 pkg-config amd64 0.29-4+b1 [63.3 kB] Get:1215 http://deb.debian.org/debian stretch/main amd64 zlib1g-dev amd64 1:1.2.8.dfsg-5 [205 kB] Get:1216 http://deb.debian.org/debian stretch/main amd64 libbambamc-dev amd64 0.0.50-1 [45.9 kB] Get:1217 http://deb.debian.org/debian stretch/main amd64 libbamtools-dev amd64 2.4.1+dfsg-1 [229 kB] Get:1218 http://deb.debian.org/debian stretch/main amd64 libbio-asn1-entrezgene-perl all 1.720-1 [38.5 kB] Get:1219 http://deb.debian.org/debian stretch/main amd64 libwww-curl-perl amd64 4.17-4 [55.9 kB] Get:1220 http://deb.debian.org/debian stretch/main amd64 libbio-das-lite-perl all 2.11-5 [25.9 kB] Get:1221 http://deb.debian.org/debian stretch/main amd64 libtie-ixhash-perl all 1.23-2 [11.7 kB] Get:1222 http://deb.debian.org/debian stretch/main amd64 libbio-mage-perl all 20030502.3-3 [1157 kB] Get:1223 http://deb.debian.org/debian stretch/main amd64 libbio-mage-utils-perl all 20030502.0-2 [59.1 kB] Get:1224 http://deb.debian.org/debian stretch/main amd64 libclass-base-perl all 0.08-1 [17.7 kB] Get:1225 http://deb.debian.org/debian stretch/main amd64 primer3 amd64 2.3.7-3 [173 kB] Get:1226 http://deb.debian.org/debian stretch/main amd64 ncbi-epcr amd64 2.3.12-1-4 [113 kB] Get:1227 http://deb.debian.org/debian stretch/main amd64 libbio-primerdesigner-perl all 0.07-5 [45.7 kB] Get:1228 http://deb.debian.org/debian stretch/main amd64 libstaden-read11 amd64 1.14.8-2 [311 kB] Get:1229 http://deb.debian.org/debian stretch/main amd64 libbio-scf-perl amd64 1.03-3 [20.3 kB] Get:1230 http://deb.debian.org/debian stretch/main amd64 libbiococoa2 amd64 2.2.2-2+b1 [121 kB] Get:1231 http://deb.debian.org/debian stretch/main amd64 libgnustep-base-dev amd64 1.24.9-3.1+deb9u1 [1664 kB] Get:1232 http://deb.debian.org/debian stretch/main amd64 libbiococoa-dev amd64 2.2.2-2+b1 [118 kB] Get:1233 http://deb.debian.org/debian stretch/main amd64 libjgraph-java all 5.12.4.2+dfsg-5 [205 kB] Get:1234 http://deb.debian.org/debian stretch/main amd64 libjgrapht0.8-java all 0.8.3-4 [215 kB] Get:1235 http://deb.debian.org/debian stretch/main amd64 libjson-simple-java all 1.1.1-4 [26.1 kB] Get:1236 http://deb.debian.org/debian stretch/main amd64 libslf4j-java all 1.7.22-1 [134 kB] Get:1237 http://deb.debian.org/debian stretch/main amd64 libvecmath-java all 1.5.2-5 [76.9 kB] Get:1238 http://deb.debian.org/debian stretch/main amd64 libxmlunit-java all 1.6-1 [95.5 kB] Get:1239 http://deb.debian.org/debian stretch/main amd64 icedtea-netx amd64 1.6.2-3.1+deb9u1 [34.9 kB] Get:1240 http://deb.debian.org/debian stretch/main amd64 liblog4j2-java all 2.7-2 [1456 kB] Get:1241 http://deb.debian.org/debian stretch/main amd64 libbiojava4.0-java all 4.2.5+dfsg-1 [5463 kB] Get:1242 http://deb.debian.org/debian stretch/main amd64 libbiojava4-java all 4.2.5+dfsg-1 [3666 B] Get:1243 http://deb.debian.org/debian stretch/main amd64 libbit-vector-perl amd64 7.4-1+b2 [146 kB] Get:1244 http://deb.debian.org/debian stretch/main amd64 libblas-dev amd64 3.7.0-2 [162 kB] Get:1245 http://deb.debian.org/debian stretch/main amd64 libblasr-dev amd64 0~20161219-1 [1700 kB] Get:1246 http://deb.debian.org/debian stretch/main amd64 libzstd1 amd64 1.1.2-1 [193 kB] Get:1247 http://deb.debian.org/debian stretch/main amd64 libblosc1 amd64 1.11.1+ds2-1 [41.0 kB] Get:1248 http://deb.debian.org/debian stretch/main amd64 libboost-atomic1.62.0 amd64 1.62.0+dfsg-4 [30.5 kB] Get:1249 http://deb.debian.org/debian stretch/main amd64 libboost1.62-dev amd64 1.62.0+dfsg-4 [7053 kB] Get:1250 http://deb.debian.org/debian stretch/main amd64 libboost-system1.62-dev amd64 1.62.0+dfsg-4 [33.9 kB] Get:1251 http://deb.debian.org/debian stretch/main amd64 libboost-filesystem1.62-dev amd64 1.62.0+dfsg-4 [73.0 kB] Get:1252 http://deb.debian.org/debian stretch/main amd64 libicu-dev amd64 57.1-6+deb9u4 [16.5 MB] Get:1253 http://deb.debian.org/debian stretch/main amd64 libboost-regex1.62-dev amd64 1.62.0+dfsg-4 [334 kB] Get:1254 http://deb.debian.org/debian stretch/main amd64 libboost-iostreams1.62-dev amd64 1.62.0+dfsg-4 [57.1 kB] Get:1255 http://deb.debian.org/debian stretch/main amd64 libboost-mpi1.62.0 amd64 1.62.0+dfsg-4 [70.6 kB] Get:1256 http://deb.debian.org/debian stretch/main amd64 libboost-python1.62.0 amd64 1.62.0+dfsg-4 [137 kB] Get:1257 http://deb.debian.org/debian stretch/main amd64 libboost-timer1.62.0 amd64 1.62.0+dfsg-4 [34.5 kB] Get:1258 http://deb.debian.org/debian stretch/main amd64 libbpp-core2v5 amd64 2.2.0-3 [540 kB] Get:1259 http://deb.debian.org/debian stretch/main amd64 libbpp-core-dev amd64 2.2.0-3 [870 kB] Get:1260 http://deb.debian.org/debian stretch/main amd64 libbpp-seq9v5 amd64 2.2.0-1+b1 [485 kB] Get:1261 http://deb.debian.org/debian stretch/main amd64 libbpp-phyl9v5 amd64 2.2.0-1+b1 [1514 kB] Get:1262 http://deb.debian.org/debian stretch/main amd64 libbpp-seq-dev amd64 2.2.0-1+b1 [1166 kB] Get:1263 http://deb.debian.org/debian stretch/main amd64 libbpp-phyl-dev amd64 2.2.0-1+b1 [3983 kB] Get:1264 http://deb.debian.org/debian stretch/main amd64 libbpp-seq-omics1v5 amd64 2.2.0-1 [249 kB] Get:1265 http://deb.debian.org/debian stretch/main amd64 libbpp-phyl-omics1v5 amd64 2.2.0-2 [67.6 kB] Get:1266 http://deb.debian.org/debian stretch/main amd64 libbpp-seq-omics-dev amd64 2.2.0-1 [574 kB] Get:1267 http://deb.debian.org/debian stretch/main amd64 libbpp-phyl-omics-dev amd64 2.2.0-2 [126 kB] Get:1268 http://deb.debian.org/debian stretch/main amd64 libbpp-popgen6v5 amd64 2.2.0-1 [296 kB] Get:1269 http://deb.debian.org/debian stretch/main amd64 libbpp-popgen-dev amd64 2.2.0-1 [468 kB] Get:1270 http://deb.debian.org/debian stretch/main amd64 libbpp-qt1v5 amd64 2.2.0-1+b1 [67.6 kB] Get:1271 http://deb.debian.org/debian stretch/main amd64 qtchooser amd64 63-g13a3d08-1 [25.2 kB] Get:1272 http://deb.debian.org/debian stretch/main amd64 qdbus amd64 4:4.8.7+dfsg-11 [76.8 kB] Get:1273 http://deb.debian.org/debian stretch/main amd64 libqt4-dbus amd64 4:4.8.7+dfsg-11 [52.7 kB] Get:1274 http://deb.debian.org/debian stretch/main amd64 libqt4-script amd64 4:4.8.7+dfsg-11 [861 kB] Get:1275 http://deb.debian.org/debian stretch/main amd64 libqt4-declarative amd64 4:4.8.7+dfsg-11 [1131 kB] Get:1276 http://deb.debian.org/debian stretch/main amd64 libqt4-designer amd64 4:4.8.7+dfsg-11 [3679 kB] Get:1277 http://deb.debian.org/debian stretch/main amd64 libqt4-qt3support amd64 4:4.8.7+dfsg-11 [1092 kB] Get:1278 http://deb.debian.org/debian stretch/main amd64 libqt4-dev-bin amd64 4:4.8.7+dfsg-11 [1735 kB] Get:1279 http://deb.debian.org/debian stretch/main amd64 libqt4-help amd64 4:4.8.7+dfsg-11 [252 kB] Get:1280 http://deb.debian.org/debian stretch/main amd64 libqt4-scripttools amd64 4:4.8.7+dfsg-11 [270 kB] Get:1281 http://deb.debian.org/debian stretch/main amd64 libqt4-svg amd64 4:4.8.7+dfsg-11 [185 kB] Get:1282 http://deb.debian.org/debian stretch/main amd64 qt4-linguist-tools amd64 4:4.8.7+dfsg-11 [919 kB] Get:1283 http://deb.debian.org/debian stretch/main amd64 qt4-qmake amd64 4:4.8.7+dfsg-11 [1296 kB] Get:1284 http://deb.debian.org/debian stretch/main amd64 libqt4-dev amd64 4:4.8.7+dfsg-11 [894 kB] Get:1285 http://deb.debian.org/debian stretch/main amd64 libbpp-qt-dev amd64 2.2.0-1+b1 [91.5 kB] Get:1286 http://deb.debian.org/debian stretch/main amd64 libbpp-raa1v5 amd64 2.2.0-2 [48.0 kB] Get:1287 http://deb.debian.org/debian stretch/main amd64 libbpp-raa-dev amd64 2.2.0-2 [59.7 kB] Get:1288 http://deb.debian.org/debian stretch/main amd64 libbsd-resource-perl amd64 1.2910-1+b1 [33.7 kB] Get:1289 http://deb.debian.org/debian stretch/main amd64 libbz2-dev amd64 1.0.6-8.1 [29.4 kB] Get:1290 http://deb.debian.org/debian stretch/main amd64 libcamd2 amd64 1:4.5.4-1 [32.3 kB] Get:1291 http://deb.debian.org/debian stretch/main amd64 libcapture-tiny-perl all 0.44-1 [25.4 kB] Get:1292 http://deb.debian.org/debian stretch/main amd64 libccolamd2 amd64 1:4.5.4-1 [34.4 kB] Get:1293 http://deb.debian.org/debian stretch/main amd64 libcfitsio5 amd64 3.410-1 [517 kB] Get:1294 http://deb.debian.org/debian stretch/main amd64 libfile-pushd-perl all 1.014-1 [13.6 kB] Get:1295 http://deb.debian.org/debian stretch/main amd64 libcgi-compile-perl all 0.21-1 [14.3 kB] Get:1296 http://deb.debian.org/debian stretch/main amd64 libcgi-emulate-psgi-perl all 0.22-1 [10.9 kB] Get:1297 http://deb.debian.org/debian stretch/main amd64 libfcgi-perl amd64 0.78-2 [38.2 kB] Get:1298 http://deb.debian.org/debian stretch/main amd64 libcgi-fast-perl all 1:2.12-1 [11.2 kB] Get:1299 http://deb.debian.org/debian stretch/main amd64 libmetis5 amd64 5.1.0.dfsg-5+b2 [175 kB] Get:1300 http://deb.debian.org/debian stretch/main amd64 libcholmod3 amd64 1:4.5.4-1 [320 kB] Get:1301 http://deb.debian.org/debian stretch/main amd64 libclass-autoloadcan-perl all 0.03-2 [11.1 kB] Get:1302 http://deb.debian.org/debian stretch/main amd64 libprefork-perl all 1.04-2 [12.2 kB] Get:1303 http://deb.debian.org/debian stretch/main amd64 libclass-autouse-perl all 2.01-1 [29.5 kB] Get:1304 http://deb.debian.org/debian stretch/main amd64 libclass-c3-xs-perl amd64 0.14-1+b1 [16.3 kB] Get:1305 http://deb.debian.org/debian stretch/main amd64 libsql-abstract-limit-perl all 2:0.14.1-5 [19.9 kB] Get:1306 http://deb.debian.org/debian stretch/main amd64 libclass-dbi-abstractsearch-perl all 0.07-3 [8270 B] Get:1307 http://deb.debian.org/debian stretch/main amd64 libparams-util-perl amd64 1.07-3+b1 [22.7 kB] Get:1308 http://deb.debian.org/debian stretch/main amd64 libsub-install-perl all 0.928-1 [11.4 kB] Get:1309 http://deb.debian.org/debian stretch/main amd64 libdata-optlist-perl all 0.110-1 [10.6 kB] Get:1310 http://deb.debian.org/debian stretch/main amd64 libclass-load-perl all 0.23-1 [15.9 kB] Get:1311 http://deb.debian.org/debian stretch/main amd64 libclass-load-xs-perl amd64 0.09-2+b1 [14.4 kB] Get:1312 http://deb.debian.org/debian stretch/main amd64 libclass-tiny-perl all 1.006-1 [18.8 kB] Get:1313 http://deb.debian.org/debian stretch/main amd64 libclass-xsaccessor-perl amd64 1.19-2+b7 [36.7 kB] Get:1314 http://deb.debian.org/debian stretch/main amd64 libclone-pp-perl all 1.06-1 [10.1 kB] Get:1315 http://deb.debian.org/debian stretch/main amd64 libcommons-collections4-java all 4.1-1 [656 kB] Get:1316 http://deb.debian.org/debian stretch/main amd64 libcommons-configuration-java all 1.10-4 [331 kB] Get:1317 http://deb.debian.org/debian stretch/main amd64 libconfig-tiny-perl all 2.23-1 [15.9 kB] Get:1318 http://deb.debian.org/debian stretch/main amd64 libconsensuscore-dev amd64 1.0.2-2 [474 kB] Get:1319 http://deb.debian.org/debian stretch/main amd64 libconvert-binary-c-perl amd64 0.78-1+b1 [271 kB] Get:1320 http://deb.debian.org/debian stretch/main amd64 libconvert-binhex-perl all 1.125-1 [30.5 kB] Get:1321 http://deb.debian.org/debian stretch/main amd64 libcookie-baker-perl all 0.07-1 [8042 B] Get:1322 http://deb.debian.org/debian stretch/main amd64 libcpan-changes-perl all 0.400002-1 [34.7 kB] Get:1323 http://deb.debian.org/debian stretch/main amd64 libcrypt-rc4-perl all 2.02-2 [8150 B] Get:1324 http://deb.debian.org/debian stretch/main amd64 libcrypto++6 amd64 5.6.4-7 [829 kB] Get:1325 http://deb.debian.org/debian stretch/main amd64 libcupsfilters1 amd64 1.11.6-3+deb9u1 [129 kB] Get:1326 http://deb.debian.org/debian stretch/main amd64 libcxsparse3 amd64 1:4.5.4-1 [74.7 kB] Get:1327 http://deb.debian.org/debian stretch/main amd64 libnumber-compare-perl all 0.03-1 [7642 B] Get:1328 http://deb.debian.org/debian stretch/main amd64 libtext-glob-perl all 0.10-1 [8362 B] Get:1329 http://deb.debian.org/debian stretch/main amd64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:1330 http://deb.debian.org/debian stretch/main amd64 libdata-compare-perl all 1.25-0.1 [19.6 kB] Get:1331 http://deb.debian.org/debian stretch/main amd64 libdata-perl-perl all 0.002009-1 [50.5 kB] Get:1332 http://deb.debian.org/debian stretch/main amd64 libsub-exporter-perl all 0.986-1 [49.9 kB] Get:1333 http://deb.debian.org/debian stretch/main amd64 libdata-section-perl all 0.200006-1 [13.4 kB] Get:1334 http://deb.debian.org/debian stretch/main amd64 libdata-uuid-libuuid-perl amd64 0.05-3 [14.9 kB] Get:1335 http://deb.debian.org/debian stretch/main amd64 libdate-calc-perl all 6.4-1 [194 kB] Get:1336 http://deb.debian.org/debian stretch/main amd64 libdate-calc-xs-perl amd64 6.4-1+b2 [54.3 kB] Get:1337 http://deb.debian.org/debian stretch/main amd64 libdate-manip-perl all 6.57-1 [911 kB] Get:1338 http://deb.debian.org/debian stretch/main amd64 libdbd-mysql-perl amd64 4.041-2 [114 kB] Get:1339 http://deb.debian.org/debian stretch/main amd64 libpadwalker-perl amd64 2.2-2+b1 [19.7 kB] Get:1340 http://deb.debian.org/debian stretch/main amd64 libdevel-argnames-perl all 0.03-1 [6020 B] Get:1341 http://deb.debian.org/debian stretch/main amd64 libdevel-caller-perl amd64 2.06-1+b4 [11.8 kB] Get:1342 http://deb.debian.org/debian stretch/main amd64 libdevel-lexalias-perl amd64 0.05-1+b4 [8752 B] Get:1343 http://deb.debian.org/debian stretch/main amd64 libdevel-overloadinfo-perl all 0.004-1 [7270 B] Get:1344 http://deb.debian.org/debian stretch/main amd64 libdevel-partialdump-perl all 0.18-2 [14.6 kB] Get:1345 http://deb.debian.org/debian stretch/main amd64 libdevel-stacktrace-perl all 2.0200-1 [27.3 kB] Get:1346 http://deb.debian.org/debian stretch/main amd64 libdevel-stacktrace-ashtml-perl all 0.15-1 [12.3 kB] Get:1347 http://deb.debian.org/debian stretch/main amd64 libdigest-perl-md5-perl all 1.9-1 [11.7 kB] Get:1348 http://deb.debian.org/debian stretch/main amd64 libdisorder-dev amd64 0.0.2-1 [3916 B] Get:1349 http://deb.debian.org/debian stretch/main amd64 libdist-checkconflicts-perl all 0.11-1 [10.8 kB] Get:1350 http://deb.debian.org/debian stretch/main amd64 libdivsufsort-dev amd64 2.0.1-2 [27.1 kB] Get:1351 http://deb.debian.org/debian stretch/main amd64 libdjvulibre-text all 3.5.27.1-7 [60.7 kB] Get:1352 http://deb.debian.org/debian stretch/main amd64 libdjvulibre21 amd64 3.5.27.1-7 [568 kB] Get:1353 http://deb.debian.org/debian stretch/main amd64 libisorelax-java all 20041111-9 [62.4 kB] Get:1354 http://deb.debian.org/debian stretch/main amd64 librelaxng-datatype-java all 1.0+ds1-3 [11.7 kB] Get:1355 http://deb.debian.org/debian stretch/main amd64 libmsv-java all 2009.1+dfsg1-5 [771 kB] Get:1356 http://deb.debian.org/debian stretch/main amd64 libxpp2-java all 2.1.10-7 [147 kB] Get:1357 http://deb.debian.org/debian stretch/main amd64 libxpp3-java all 1.1.4c-2 [349 kB] Get:1358 http://deb.debian.org/debian stretch/main amd64 libdom4j-java all 1.6.1+dfsg.3-2+deb9u1 [348 kB] Get:1359 http://deb.debian.org/debian stretch/main amd64 libdrm-amdgpu1 amd64 2.4.74-1 [26.4 kB] Get:1360 http://deb.debian.org/debian stretch/main amd64 libdrm-radeon1 amd64 2.4.74-1 [30.2 kB] Get:1361 http://deb.debian.org/debian stretch/main amd64 libdrm-nouveau2 amd64 2.4.74-1 [25.1 kB] Get:1362 http://deb.debian.org/debian stretch/main amd64 libdrm-dev amd64 2.4.74-1 [232 kB] Get:1363 http://deb.debian.org/debian stretch/main amd64 libemail-date-format-perl all 1.005-1 [7050 B] Get:1364 http://deb.debian.org/debian stretch/main amd64 libenv-path-perl all 0.19-1 [22.0 kB] Get:1365 http://deb.debian.org/debian stretch/main amd64 liberfa1 amd64 1.3.0-2 [115 kB] Get:1366 http://deb.debian.org/debian stretch/main amd64 libeval-closure-perl all 0.14-1 [11.5 kB] Get:1367 http://deb.debian.org/debian stretch/main amd64 libexception-class-perl all 1.42-1 [31.5 kB] Get:1368 http://deb.debian.org/debian stretch/main amd64 libexpat1-dev amd64 2.2.0-2+deb9u3 [134 kB] Get:1369 http://deb.debian.org/debian stretch/main amd64 libjpeg62-turbo-dev amd64 1:1.5.1-2 [210 kB] Get:1370 http://deb.debian.org/debian stretch/main amd64 libjpeg-dev all 1:1.5.1-2 [56.1 kB] Get:1371 http://deb.debian.org/debian stretch/main amd64 libaec-dev amd64 0.3.2-1 [17.4 kB] Get:1372 http://deb.debian.org/debian stretch/main amd64 libhdf5-dev amd64 1.10.0-patch1+docs-3+deb9u1 [2438 kB] Get:1373 http://deb.debian.org/debian stretch/main amd64 libfast5-dev all 0.5.8-1 [23.3 kB] Get:1374 http://deb.debian.org/debian stretch/main amd64 libfastahack-dev amd64 0.0+20160702-1+b1 [22.9 kB] Get:1375 http://deb.debian.org/debian stretch/main amd64 libfastutil-java all 7.0.13-1 [14.4 MB] Get:1376 http://deb.debian.org/debian stretch/main amd64 libfcgi-procmanager-perl all 0.25-1 [21.1 kB] Get:1377 http://deb.debian.org/debian stretch/main amd64 libfile-chdir-perl all 0.1008-1 [13.3 kB] Get:1378 http://deb.debian.org/debian stretch/main amd64 libfile-copy-link-perl all 0.140-2 [16.1 kB] Get:1379 http://deb.debian.org/debian stretch/main amd64 libfile-desktopentry-perl all 0.22-1 [19.2 kB] Get:1380 http://deb.debian.org/debian stretch/main amd64 libfile-fcntllock-perl amd64 0.22-3+b2 [35.3 kB] Get:1381 http://deb.debian.org/debian stretch/main amd64 libfile-grep-perl all 0.02-1 [7654 B] Get:1382 http://deb.debian.org/debian stretch/main amd64 libfile-homedir-perl all 1.00-1 [48.9 kB] Get:1383 http://deb.debian.org/debian stretch/main amd64 libfile-mimeinfo-perl all 0.27-1 [50.2 kB] Get:1384 http://deb.debian.org/debian stretch/main amd64 libfile-slurp-perl all 9999.19-6 [43.2 kB] Get:1385 http://deb.debian.org/debian stretch/main amd64 libfile-slurp-tiny-perl all 0.003-1 [6852 B] Get:1386 http://deb.debian.org/debian stretch/main amd64 libfile-slurper-perl all 0.009-1 [7850 B] Get:1387 http://deb.debian.org/debian stretch/main amd64 libfilesys-notify-simple-perl all 0.12-1 [9362 B] Get:1388 http://deb.debian.org/debian stretch/main amd64 libfindbin-libs-perl all 2.150-1 [28.7 kB] Get:1389 http://deb.debian.org/debian stretch/main amd64 libfltk1.3 amd64 1.3.4-4 [550 kB] Get:1390 http://deb.debian.org/debian stretch/main amd64 libfltk-gl1.3 amd64 1.3.4-4 [70.7 kB] Get:1391 http://deb.debian.org/debian stretch/main amd64 libfltk-images1.3 amd64 1.3.4-4 [57.9 kB] Get:1392 http://deb.debian.org/debian stretch/main amd64 libfml-dev amd64 0.1-2+b1 [71.7 kB] Get:1393 http://deb.debian.org/debian stretch/main amd64 libfont-afm-perl all 1.20-2 [13.6 kB] Get:1394 http://deb.debian.org/debian stretch/main amd64 libpng-dev amd64 1.6.28-1+deb9u1 [250 kB] Get:1395 http://deb.debian.org/debian stretch/main amd64 libfreetype6-dev amd64 2.6.3-3.2+deb9u1 [5815 kB] Get:1396 http://deb.debian.org/debian stretch/main amd64 libfontconfig1-dev amd64 2.11.0-6.7+b1 [897 kB] Get:1397 http://deb.debian.org/debian stretch/main amd64 libfreecontact0v5 amd64 1.0.21-5 [70.1 kB] Get:1398 http://deb.debian.org/debian stretch/main amd64 libfreecontact-dev amd64 1.0.21-5 [78.7 kB] Get:1399 http://deb.debian.org/debian stretch/main amd64 libfribidi0 amd64 0.19.7-1+deb9u1 [45.6 kB] Get:1400 http://deb.debian.org/debian stretch/main amd64 libfuse2 amd64 2.9.7-1+deb9u2 [126 kB] Get:1401 http://deb.debian.org/debian stretch/main amd64 libg20 amd64 0.72-6 [42.5 kB] Get:1402 http://deb.debian.org/debian stretch/main amd64 libgail18 amd64 2.24.31-2 [54.1 kB] Get:1403 http://deb.debian.org/debian stretch/main amd64 libgail-common amd64 2.24.31-2 [153 kB] Get:1404 http://deb.debian.org/debian stretch/main amd64 libsvg-perl all 2.64-1 [69.8 kB] Get:1405 http://deb.debian.org/debian stretch/main amd64 libgd-svg-perl all 0.33-1 [64.8 kB] Get:1406 http://deb.debian.org/debian stretch/main amd64 libgenome-1.3-0v5 amd64 1.3.1-9 [111 kB] Get:1407 http://deb.debian.org/debian stretch/main amd64 libgenome-1.3-dev amd64 1.3.1-9 [172 kB] Get:1408 http://deb.debian.org/debian stretch/main amd64 libgetopt-complete-perl all 0.26-2 [51.0 kB] Get:1409 http://deb.debian.org/debian stretch/main amd64 liblingua-en-inflect-perl all 1.901-1 [53.3 kB] Get:1410 http://deb.debian.org/debian stretch/main amd64 libossp-uuid16 amd64 1.6.2-1.5+b4 [38.3 kB] Get:1411 http://deb.debian.org/debian stretch/main amd64 libossp-uuid-perl amd64 1.6.2-1.5+b4 [28.7 kB] Get:1412 http://deb.debian.org/debian stretch/main amd64 libhash-multivalue-perl all 0.16-1 [14.7 kB] Get:1413 http://deb.debian.org/debian stretch/main amd64 libhttp-multipartparser-perl all 0.01-1 [9296 B] Get:1414 http://deb.debian.org/debian stretch/main amd64 libtypes-serialiser-perl all 1.0-1 [12.7 kB] Get:1415 http://deb.debian.org/debian stretch/main amd64 libjson-xs-perl amd64 3.030-1 [91.6 kB] Get:1416 http://deb.debian.org/debian stretch/main amd64 libjson-maybexs-perl all 1.003008-1 [11.8 kB] Get:1417 http://deb.debian.org/debian stretch/main amd64 libstream-buffered-perl all 0.03-1 [6048 B] Get:1418 http://deb.debian.org/debian stretch/main amd64 libwww-form-urlencoded-perl all 0.23-2 [12.4 kB] Get:1419 http://deb.debian.org/debian stretch/main amd64 libhttp-entity-parser-perl all 0.18-1 [19.6 kB] Get:1420 http://deb.debian.org/debian stretch/main amd64 libhttp-headers-fast-perl all 0.20-1 [11.1 kB] Get:1421 http://deb.debian.org/debian stretch/main amd64 libtest-sharedfork-perl all 0.35-1 [9374 B] Get:1422 http://deb.debian.org/debian stretch/main amd64 libtest-tcp-perl all 2.17-1 [21.4 kB] Get:1423 http://deb.debian.org/debian stretch/main amd64 libplack-perl all 1.0042-1 [253 kB] Get:1424 http://deb.debian.org/debian stretch/main amd64 libsub-uplevel-perl all 0.2600-1 [16.1 kB] Get:1425 http://deb.debian.org/debian stretch/main amd64 libtest-exception-perl all 0.43-1 [18.7 kB] Get:1426 http://deb.debian.org/debian stretch/main amd64 libtest-fork-perl all 0.02-2 [7216 B] Get:1427 http://deb.debian.org/debian stretch/main amd64 libtext-diff-perl all 1.44-1 [27.4 kB] Get:1428 http://deb.debian.org/debian stretch/main amd64 libur-perl all 0.450-1 [1374 kB] Get:1429 http://deb.debian.org/debian stretch/main amd64 libgenome-perl all 0.06-3 [39.5 kB] Get:1430 http://deb.debian.org/debian stretch/main amd64 libstatistics-distributions-perl all 1.02-1 [10.6 kB] Get:1431 http://deb.debian.org/debian stretch/main amd64 libtext-csv-xs-perl amd64 1.26-1 [114 kB] Get:1432 http://deb.debian.org/debian stretch/main amd64 libgenome-model-tools-music-perl all 0.04-3 [275 kB] Get:1433 http://deb.debian.org/debian stretch/main amd64 libgetopt-java all 1.0.14+dfsg-3 [24.9 kB] Get:1434 http://deb.debian.org/debian stretch/main amd64 libgetopt-long-descriptive-perl all 0.100-1 [26.9 kB] Get:1435 http://deb.debian.org/debian stretch/main amd64 libgff-dev amd64 1.0-1+b1 [138 kB] Get:1436 http://deb.debian.org/debian stretch/main amd64 libgkarrays-dev amd64 2.1.0+dfsg-1 [80.2 kB] Get:1437 http://deb.debian.org/debian stretch/main amd64 xorg-sgml-doctools all 1:1.11-1 [21.9 kB] Get:1438 http://deb.debian.org/debian stretch/main amd64 x11proto-core-dev all 7.0.31-1 [728 kB] Get:1439 http://deb.debian.org/debian stretch/main amd64 libxau-dev amd64 1:1.0.8-1 [23.6 kB] Get:1440 http://deb.debian.org/debian stretch/main amd64 libxdmcp-dev amd64 1:1.1.2-3 [42.2 kB] Get:1441 http://deb.debian.org/debian stretch/main amd64 x11proto-input-dev all 2.3.2-1 [158 kB] Get:1442 http://deb.debian.org/debian stretch/main amd64 x11proto-kb-dev all 1.0.7-1 [233 kB] Get:1443 http://deb.debian.org/debian stretch/main amd64 xtrans-dev all 1.3.5-1 [100 kB] Get:1444 http://deb.debian.org/debian stretch/main amd64 libpthread-stubs0-dev amd64 0.3-4 [3866 B] Get:1445 http://deb.debian.org/debian stretch/main amd64 libxcb1-dev amd64 1.12-1 [169 kB] Get:1446 http://deb.debian.org/debian stretch/main amd64 libx11-dev amd64 2:1.6.4-3+deb9u1 [815 kB] Get:1447 http://deb.debian.org/debian stretch/main amd64 mesa-common-dev amd64 13.0.6-1+b2 [517 kB] Get:1448 http://deb.debian.org/debian stretch/main amd64 libx11-xcb-dev amd64 2:1.6.4-3+deb9u1 [185 kB] Get:1449 http://deb.debian.org/debian stretch/main amd64 libxcb-dri3-dev amd64 1.12-1 [96.1 kB] Get:1450 http://deb.debian.org/debian stretch/main amd64 libxcb-render0-dev amd64 1.12-1 [109 kB] Get:1451 http://deb.debian.org/debian stretch/main amd64 libxcb-randr0-dev amd64 1.12-1 [110 kB] Get:1452 http://deb.debian.org/debian stretch/main amd64 libxcb-shape0-dev amd64 1.12-1 [97.4 kB] Get:1453 http://deb.debian.org/debian stretch/main amd64 libxcb-xfixes0-dev amd64 1.12-1 [102 kB] Get:1454 http://deb.debian.org/debian stretch/main amd64 libxcb-sync-dev amd64 1.12-1 [101 kB] Get:1455 http://deb.debian.org/debian stretch/main amd64 libxcb-present-dev amd64 1.12-1 [97.2 kB] Get:1456 http://deb.debian.org/debian stretch/main amd64 libxshmfence-dev amd64 1.2-1+b2 [7420 B] Get:1457 http://deb.debian.org/debian stretch/main amd64 libxcb-dri2-0-dev amd64 1.12-1 [98.8 kB] Get:1458 http://deb.debian.org/debian stretch/main amd64 libxcb-glx0-dev amd64 1.12-1 [118 kB] Get:1459 http://deb.debian.org/debian stretch/main amd64 x11proto-xext-dev all 7.3.0-1 [212 kB] Get:1460 http://deb.debian.org/debian stretch/main amd64 x11proto-fixes-dev all 1:5.0-2 [19.2 kB] Get:1461 http://deb.debian.org/debian stretch/main amd64 libxfixes-dev amd64 1:5.0.3-1 [23.8 kB] Get:1462 http://deb.debian.org/debian stretch/main amd64 x11proto-damage-dev all 1:1.2.1-2 [11.8 kB] Get:1463 http://deb.debian.org/debian stretch/main amd64 libxdamage-dev amd64 1:1.1.4-2+b3 [14.3 kB] Get:1464 http://deb.debian.org/debian stretch/main amd64 libxext-dev amd64 2:1.3.3-1+b2 [107 kB] Get:1465 http://deb.debian.org/debian stretch/main amd64 x11proto-xf86vidmode-dev all 2.3.1-2 [6114 B] Get:1466 http://deb.debian.org/debian stretch/main amd64 libxxf86vm-dev amd64 1:1.1.4-1+b2 [25.4 kB] Get:1467 http://deb.debian.org/debian stretch/main amd64 x11proto-dri2-dev all 2.8-2 [18.2 kB] Get:1468 http://deb.debian.org/debian stretch/main amd64 x11proto-gl-dev all 1.4.17-1 [28.0 kB] Get:1469 http://deb.debian.org/debian stretch/main amd64 libgl1-mesa-dev amd64 13.0.6-1+b2 [41.5 kB] Get:1470 http://deb.debian.org/debian stretch/main amd64 libllvm3.9 amd64 1:3.9.1-9 [11.3 MB] Get:1471 http://deb.debian.org/debian stretch/main amd64 libgl1-mesa-dri amd64 13.0.6-1+b2 [4536 kB] Get:1472 http://deb.debian.org/debian stretch/main amd64 libgl2ps1 amd64 1.3.9-4 [36.7 kB] Get:1473 http://deb.debian.org/debian stretch/main amd64 libglib2.0-data all 2.50.3-2+deb9u2 [2517 kB] Get:1474 http://deb.debian.org/debian stretch/main amd64 libglu1-mesa-dev amd64 9.0.0-2.1 [202 kB] Get:1475 http://deb.debian.org/debian stretch/main amd64 libgmpxx4ldbl amd64 2:6.1.2+dfsg-1 [22.2 kB] Get:1476 http://deb.debian.org/debian stretch/main amd64 libgmp-dev amd64 2:6.1.2+dfsg-1 [631 kB] Get:1477 http://deb.debian.org/debian stretch/main amd64 libparse-yapp-perl all 1.05-12 [50.5 kB] Get:1478 http://deb.debian.org/debian stretch/main amd64 libxml-writer-perl all 0.625-1 [29.7 kB] Get:1479 http://deb.debian.org/debian stretch/main amd64 libgraph-readwrite-perl all 2.09-1 [44.7 kB] Get:1480 http://deb.debian.org/debian stretch/main amd64 libwebpmux2 amd64 0.5.2-1 [83.9 kB] Get:1481 http://deb.debian.org/debian stretch/main amd64 libwmf0.2-7 amd64 0.2.8.4-10.6 [167 kB] Get:1482 http://deb.debian.org/debian stretch/main amd64 libgraphicsmagick-q16-3 amd64 1.3.30+hg15796-1~deb9u4 [1178 kB] Get:1483 http://deb.debian.org/debian stretch/main amd64 libgraphicsmagick++-q16-12 amd64 1.3.30+hg15796-1~deb9u4 [146 kB] Get:1484 http://deb.debian.org/debian stretch/main amd64 libntlm0 amd64 1.4-8 [20.9 kB] Get:1485 http://deb.debian.org/debian stretch/main amd64 libgsasl7 amd64 1.8.0-8+b2 [207 kB] Get:1486 http://deb.debian.org/debian stretch/main amd64 libgsl-dev amd64 2.3+dfsg-1 [992 kB] Get:1487 http://deb.debian.org/debian stretch/main amd64 libgtk-3-bin amd64 3.22.11-1 [110 kB] Get:1488 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-bin amd64 2.24.31-2 [47.1 kB] Get:1489 http://deb.debian.org/debian stretch/main amd64 libgts-bin amd64 0.7.6+darcs121130-4 [50.8 kB] Get:1490 http://deb.debian.org/debian stretch/main amd64 libguard-perl amd64 1.023-1+b2 [15.8 kB] Get:1491 http://deb.debian.org/debian stretch/main amd64 libhtml-form-perl all 6.03-1 [23.9 kB] Get:1492 http://deb.debian.org/debian stretch/main amd64 libhtml-format-perl all 2.12-1 [43.5 kB] Get:1493 http://deb.debian.org/debian stretch/main amd64 libhtml-tableextract-perl all 2.13-1 [30.7 kB] Get:1494 http://deb.debian.org/debian stretch/main amd64 libhts-dev amd64 1.3.2-2 [322 kB] Get:1495 http://deb.debian.org/debian stretch/main amd64 libice-dev amd64 2:1.0.9-2 [66.8 kB] Get:1496 http://deb.debian.org/debian stretch/main amd64 libilmbase12 amd64 2.2.0-12 [85.3 kB] Get:1497 http://deb.debian.org/debian stretch/main amd64 libio-sessiondata-perl all 1.03-1 [5782 B] Get:1498 http://deb.debian.org/debian stretch/main amd64 libipc-shareable-perl all 0.61-1 [35.4 kB] Get:1499 http://deb.debian.org/debian stretch/main amd64 libsamplerate0 amd64 0.1.8-8+b2 [949 kB] Get:1500 http://deb.debian.org/debian stretch/main amd64 libjack-jackd2-0 amd64 1.9.10+20150825git1ed50c92~dfsg-5 [292 kB] Get:1501 http://deb.debian.org/debian stretch/main amd64 libjcode-pm-perl amd64 2.06-1 [30.9 kB] Get:1502 http://deb.debian.org/debian stretch/main amd64 libjline-java all 1.0-2 [69.5 kB] Get:1503 http://deb.debian.org/debian stretch/main amd64 libjloda-java all 0.0+20161018-1 [850 kB] Get:1504 http://deb.debian.org/debian stretch/main amd64 libjs-bootstrap all 3.3.7+dfsg-2+deb9u2 [277 kB] Get:1505 http://deb.debian.org/debian stretch/main amd64 libjs-d3 all 3.5.17-2 [132 kB] Get:1506 http://deb.debian.org/debian stretch/main amd64 libjs-es5-shim all 4.5.9-1 [41.3 kB] Get:1507 http://deb.debian.org/debian stretch/main amd64 libjs-json all 0~20160510-1 [24.2 kB] Get:1508 http://deb.debian.org/debian stretch/main amd64 libjung-free-java all 2.0.1+dfsg-1 [976 kB] Get:1509 http://deb.debian.org/debian stretch/main amd64 libjxr0 amd64 1.1-6+b1 [160 kB] Get:1510 http://deb.debian.org/debian stretch/main amd64 libjxr-tools amd64 1.1-6+b1 [17.0 kB] Get:1511 http://deb.debian.org/debian stretch/main amd64 libmbedcrypto0 amd64 2.4.2-1+deb9u3 [171 kB] Get:1512 http://deb.debian.org/debian stretch/main amd64 libmbedx509-0 amd64 2.4.2-1+deb9u3 [70.7 kB] Get:1513 http://deb.debian.org/debian stretch/main amd64 libmbedtls10 amd64 2.4.2-1+deb9u3 [102 kB] Get:1514 http://deb.debian.org/debian stretch/main amd64 libmbedtls-dev amd64 2.4.2-1+deb9u3 [161 kB] Get:1515 http://deb.debian.org/debian stretch/main amd64 libkdf5-2 amd64 2.8.1+dfsg-2 [13.6 kB] Get:1516 http://deb.debian.org/debian stretch/main amd64 libkdf5-dev amd64 2.8.1+dfsg-2 [13.4 kB] Get:1517 http://deb.debian.org/debian stretch/main amd64 libmeryl-dev amd64 0~20150903+r2013-3 [51.7 kB] Get:1518 http://deb.debian.org/debian stretch/main amd64 libkmer-dev amd64 0~20150903+r2013-3 [204 kB] Get:1519 http://deb.debian.org/debian stretch/main amd64 libkyotocabinet16v5 amd64 1.2.76-4.2+b1 [298 kB] Get:1520 http://deb.debian.org/debian stretch/main amd64 liblapack-dev amd64 3.7.0-2 [2170 kB] Get:1521 http://deb.debian.org/debian stretch/main amd64 liblog-dispatch-perl all 2.58-1 [72.5 kB] Get:1522 http://deb.debian.org/debian stretch/main amd64 libltdl-dev amd64 2.4.6-2 [161 kB] Get:1523 http://deb.debian.org/debian stretch/main amd64 liblzma-dev amd64 5.2.2-1.2+b1 [292 kB] Get:1524 http://deb.debian.org/debian stretch/main amd64 libmagick++-6.q16-7 amd64 8:6.9.7.4+dfsg-11+deb9u8 [273 kB] Get:1525 http://deb.debian.org/debian stretch/main amd64 libopenexr22 amd64 2.2.0-11+b1 [577 kB] Get:1526 http://deb.debian.org/debian stretch/main amd64 libmagickcore-6.q16-3-extra amd64 8:6.9.7.4+dfsg-11+deb9u8 [191 kB] Get:1527 http://deb.debian.org/debian stretch/main amd64 libsys-hostname-long-perl all 1.5-1 [12.0 kB] Get:1528 http://deb.debian.org/debian stretch/main amd64 libmail-sendmail-perl all 0.79.16-2 [24.9 kB] Get:1529 http://deb.debian.org/debian stretch/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:1530 http://deb.debian.org/debian stretch/main amd64 libmailtools-perl all 2.18-1 [88.5 kB] Get:1531 http://deb.debian.org/debian stretch/main amd64 mailutils-common all 1:3.1.1-1 [642 kB] Get:1532 http://deb.debian.org/debian stretch/main amd64 libmailutils5 amd64 1:3.1.1-1 [817 kB] Get:1533 http://deb.debian.org/debian stretch/main amd64 libmath-derivative-perl all 0.04-2 [7208 B] Get:1534 http://deb.debian.org/debian stretch/main amd64 libmath-spline-perl all 0.02-1 [7992 B] Get:1535 http://deb.debian.org/debian stretch/main amd64 libmuscle-3.7-1 amd64 3.7+4565-2 [252 kB] Get:1536 http://deb.debian.org/debian stretch/main amd64 libmems-1.6-1v5 amd64 1.6.0+4725-4 [644 kB] Get:1537 http://deb.debian.org/debian stretch/main amd64 libmuscle-3.7-dev amd64 3.7+4565-2 [308 kB] Get:1538 http://deb.debian.org/debian stretch/main amd64 libmems-1.6-dev amd64 1.6.0+4725-4 [919 kB] Get:1539 http://deb.debian.org/debian stretch/main amd64 libmime-lite-perl all 3.030-2 [72.3 kB] Get:1540 http://deb.debian.org/debian stretch/main amd64 libmime-tools-perl all 5.508-1 [212 kB] Get:1541 http://deb.debian.org/debian stretch/main amd64 libmime-types-perl all 2.13-1 [61.7 kB] Get:1542 http://deb.debian.org/debian stretch/main amd64 libminimap-dev amd64 0.2-3+b1 [33.5 kB] Get:1543 http://deb.debian.org/debian stretch/main amd64 libmldbm-perl all 2.05-2 [18.4 kB] Get:1544 http://deb.debian.org/debian stretch/main amd64 libmodule-refresh-perl all 0.17-1 [9776 B] Get:1545 http://deb.debian.org/debian stretch/main amd64 libmodule-runtime-conflicts-perl all 0.003-1 [6882 B] Get:1546 http://deb.debian.org/debian stretch/main amd64 libmodule-signature-perl all 0.81-1 [30.1 kB] Get:1547 http://deb.debian.org/debian stretch/main amd64 libpackage-deprecationmanager-perl all 0.17-1 [16.4 kB] Get:1548 http://deb.debian.org/debian stretch/main amd64 libpackage-stash-xs-perl amd64 0.28-3+b1 [17.9 kB] Get:1549 http://deb.debian.org/debian stretch/main amd64 libmoose-perl amd64 2.1807-1 [801 kB] Get:1550 http://deb.debian.org/debian stretch/main amd64 libmoox-handlesvia-perl all 0.001008-2 [22.1 kB] Get:1551 http://deb.debian.org/debian stretch/main amd64 x11proto-render-dev all 2:0.11.1-2 [20.8 kB] Get:1552 http://deb.debian.org/debian stretch/main amd64 libxrender-dev amd64 1:0.9.10-1 [40.8 kB] Get:1553 http://deb.debian.org/debian stretch/main amd64 libxft-dev amd64 2.3.2-1+b2 [68.0 kB] Get:1554 http://deb.debian.org/debian stretch/main amd64 libsm-dev amd64 2:1.2.2-1+b3 [35.8 kB] Get:1555 http://deb.debian.org/debian stretch/main amd64 libxt-dev amd64 1:1.1.5-1 [423 kB] Get:1556 http://deb.debian.org/debian stretch/main amd64 uil amd64 2.3.4-13 [26.3 kB] Get:1557 http://deb.debian.org/debian stretch/main amd64 libmotif-dev amd64 2.3.4-13 [2471 kB] Get:1558 http://deb.debian.org/debian stretch/main amd64 libnamespace-autoclean-perl all 0.28-1 [14.7 kB] Get:1559 http://deb.debian.org/debian stretch/main amd64 libnanoxml2-java all 2.2.3.dfsg-5 [58.1 kB] Get:1560 http://deb.debian.org/debian stretch/main amd64 libncbi-vdb2 amd64 2.8.1+dfsg-2 [1037 kB] Get:1561 http://deb.debian.org/debian stretch/main amd64 libncbi-wvdb2 amd64 2.8.1+dfsg-2 [939 kB] Get:1562 http://deb.debian.org/debian stretch/main amd64 libncbi-wvdb-dev amd64 2.8.1+dfsg-2 [1067 kB] Get:1563 http://deb.debian.org/debian stretch/main amd64 libncbi-vdb-dev amd64 2.8.1+dfsg-2 [1450 kB] Get:1564 http://deb.debian.org/debian stretch/main amd64 libncbi6 amd64 6.1.20170106+dfsg1-0+deb9u1 [4024 kB] Get:1565 http://deb.debian.org/debian stretch/main amd64 libncbi6-dev amd64 6.1.20170106+dfsg1-0+deb9u1 [5310 kB] Get:1566 http://deb.debian.org/debian stretch/main amd64 libncl-dev amd64 2.1.18+dfsg-2+b1 [523 kB] Get:1567 http://deb.debian.org/debian stretch/main amd64 libtinfo-dev amd64 6.0+20161126-1+deb9u2 [79.2 kB] Get:1568 http://deb.debian.org/debian stretch/main amd64 libncurses5-dev amd64 6.0+20161126-1+deb9u2 [175 kB] Get:1569 http://deb.debian.org/debian stretch/main amd64 libncursesw5-dev amd64 6.0+20161126-1+deb9u2 [200 kB] Get:1570 http://deb.debian.org/debian stretch/main amd64 libnet-dbus-perl amd64 1.1.0-4+b1 [179 kB] Get:1571 http://deb.debian.org/debian stretch/main amd64 libnetpbm10 amd64 2:10.0-15.3+b2 [86.7 kB] Get:1572 http://deb.debian.org/debian stretch/main amd64 libnhgri-blastall-perl all 0.66-2 [26.8 kB] Get:1573 http://deb.debian.org/debian stretch/main amd64 libqrupdate1 amd64 1.1.2-2 [38.4 kB] Get:1574 http://deb.debian.org/debian stretch/main amd64 libumfpack5 amd64 1:4.5.4-1 [240 kB] Get:1575 http://deb.debian.org/debian stretch/main amd64 liboctave3v5 amd64 4.0.3-3 [6964 kB] Get:1576 http://deb.debian.org/debian stretch/main amd64 libole-storage-lite-perl all 0.19-1+deb9u1 [23.4 kB] Get:1577 http://deb.debian.org/debian stretch/main amd64 libosmesa6 amd64 13.0.6-1+b2 [1227 kB] Get:1578 http://deb.debian.org/debian stretch/main amd64 libpam-cap amd64 1:2.25-1 [13.5 kB] Get:1579 http://deb.debian.org/debian stretch/main amd64 libpath-tiny-perl all 0.100-1 [66.0 kB] Get:1580 http://deb.debian.org/debian stretch/main amd64 libssl-dev amd64 1.1.0l-1~deb9u1 [1594 kB] Get:1581 http://deb.debian.org/debian stretch/main amd64 libpbbam-dev amd64 0.7.4+ds-1 [89.8 kB] Get:1582 http://deb.debian.org/debian stretch/main amd64 libpbdata-dev amd64 0~20161219-1 [199 kB] Get:1583 http://deb.debian.org/debian stretch/main amd64 libpbihdf-dev amd64 0~20161219-1 [259 kB] Get:1584 http://deb.debian.org/debian stretch/main amd64 libpbseq-dev all 0~20161219-1 [3902 B] Get:1585 http://deb.debian.org/debian stretch/main amd64 libpcre32-3 amd64 2:8.39-3 [248 kB] Get:1586 http://deb.debian.org/debian stretch/main amd64 libpcre3-dev amd64 2:8.39-3 [647 kB] Get:1587 http://deb.debian.org/debian stretch/main amd64 libperl4-corelibs-perl all 0.003-2+deb9u1 [38.0 kB] Get:1588 http://deb.debian.org/debian stretch/main amd64 libperlio-utf8-strict-perl amd64 0.006-1+b2 [11.3 kB] Get:1589 http://deb.debian.org/debian stretch/main amd64 libplot2c2 amd64 2.6-7 [506 kB] Get:1590 http://deb.debian.org/debian stretch/main amd64 libpng-tools amd64 1.6.28-1+deb9u1 [133 kB] Get:1591 http://deb.debian.org/debian stretch/main amd64 libpod-coverage-perl all 0.23-1 [23.9 kB] Get:1592 http://deb.debian.org/debian stretch/main amd64 libpod-markdown-perl all 3.005000-1 [32.7 kB] Get:1593 http://deb.debian.org/debian stretch/main amd64 libpod-readme-perl all 1.1.2-1 [45.0 kB] Get:1594 http://deb.debian.org/debian stretch/main amd64 libportaudio2 amd64 19.6.0-1 [66.6 kB] Get:1595 http://deb.debian.org/debian stretch/main amd64 libpostscript-perl all 0.06-2 [31.4 kB] Get:1596 http://deb.debian.org/debian stretch/main amd64 libprocessing-core-java all 1.2.1-1 [173 kB] Get:1597 http://deb.debian.org/debian stretch/main amd64 libzip4 amd64 1.1.2-1.1+b1 [40.6 kB] Get:1598 http://deb.debian.org/debian stretch/main amd64 libpstoedit0c2a amd64 3.70-3+b2 [362 kB] Get:1599 http://deb.debian.org/debian stretch/main amd64 libpython2.7-dev amd64 2.7.13-2+deb9u3 [28.2 MB] Get:1600 http://deb.debian.org/debian stretch/main amd64 libpython-dev amd64 2.7.13-2 [20.1 kB] Get:1601 http://deb.debian.org/debian stretch/main amd64 libqes-dev amd64 0.2.7-1 [14.5 kB] Get:1602 http://deb.debian.org/debian stretch/main amd64 libqhull7 amd64 2015.2-2 [194 kB] Get:1603 http://deb.debian.org/debian stretch/main amd64 libqscintilla2-l10n all 2.9.3+dfsg-4 [49.6 kB] Get:1604 http://deb.debian.org/debian stretch/main amd64 libqscintilla2-12v5 amd64 2.9.3+dfsg-4 [813 kB] Get:1605 http://deb.debian.org/debian stretch/main amd64 libqt4-opengl-dev amd64 4:4.8.7+dfsg-11 [69.1 kB] Get:1606 http://deb.debian.org/debian stretch/main amd64 libqt4-sql-mysql amd64 4:4.8.7+dfsg-11 [76.9 kB] Get:1607 http://deb.debian.org/debian stretch/main amd64 libqt5xml5 amd64 5.7.1+dfsg-3+deb9u2 [120 kB] Get:1608 http://deb.debian.org/debian stretch/main amd64 libqtassistantclient4 amd64 4.6.3-7+b1 [12.9 kB] Get:1609 http://deb.debian.org/debian stretch/main amd64 libxerces-c3.1 amd64 3.1.4+debian-2+deb9u1 [842 kB] Get:1610 http://deb.debian.org/debian stretch/main amd64 librcsb-core-wrapper0 amd64 1.005-4+b3 [314 kB] Get:1611 http://deb.debian.org/debian stretch/main amd64 librcsb-core-wrapper0-dev amd64 1.005-4+b3 [379 kB] Get:1612 http://deb.debian.org/debian stretch/main amd64 librdkit1 amd64 201603.5-2 [2088 kB] Get:1613 http://deb.debian.org/debian stretch/main amd64 librdp-taxonomy-tree-java all 1.2.0-1 [17.4 kB] Get:1614 http://deb.debian.org/debian stretch/main amd64 libreadline-dev amd64 7.0-3 [132 kB] Get:1615 http://deb.debian.org/debian stretch/main amd64 librelion-1.4-1 amd64 1.4+dfsg-2+b2 [537 kB] Get:1616 http://deb.debian.org/debian stretch/main amd64 librelion-dev-common all 1.4+dfsg-2 [136 kB] Get:1617 http://deb.debian.org/debian stretch/main amd64 librelion-dev amd64 1.4+dfsg-2+b2 [643 kB] Get:1618 http://deb.debian.org/debian stretch/main amd64 librhino-java all 1.7.7.1-1 [1160 kB] Get:1619 http://deb.debian.org/debian stretch/main amd64 librostlab-blast0v5 amd64 1.0.1-7 [78.0 kB] Get:1620 http://deb.debian.org/debian stretch/main amd64 librostlab3 amd64 1.0.20-6 [5928 B] Get:1621 http://deb.debian.org/debian stretch/main amd64 librostlab3-dev amd64 1.0.20-6 [13.8 kB] Get:1622 http://deb.debian.org/debian stretch/main amd64 librostlab-blast0-dev amd64 1.0.1-7 [92.1 kB] Get:1623 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [102 kB] Get:1624 http://deb.debian.org/debian stretch/main amd64 libsaxon-java all 1:6.5.5-10 [1076 kB] Get:1625 http://deb.debian.org/debian stretch/main amd64 libsbml5 amd64 5.13.0+dfsg-1 [1801 kB] Get:1626 http://deb.debian.org/debian stretch/main amd64 libsbml5-dev amd64 5.13.0+dfsg-1 [2625 kB] Get:1627 http://deb.debian.org/debian stretch/main amd64 libtext-unidecode-perl all 1.30-1 [103 kB] Get:1628 http://deb.debian.org/debian stretch/main amd64 texinfo amd64 6.3.0.dfsg.1-1+b2 [1295 kB] Get:1629 http://deb.debian.org/debian stretch/main amd64 octave-common all 4.0.3-3 [1467 kB] Get:1630 http://deb.debian.org/debian stretch/main amd64 octave amd64 4.0.3-3 [1556 kB] Get:1631 http://deb.debian.org/debian stretch/main amd64 libsbml5-octave amd64 5.13.0+dfsg-1 [118 kB] Get:1632 http://deb.debian.org/debian stretch/main amd64 swig3.0 amd64 3.0.10-1.1 [1367 kB] Get:1633 http://deb.debian.org/debian stretch/main amd64 swig amd64 3.0.10-1.1 [305 kB] Get:1634 http://deb.debian.org/debian stretch/main amd64 libsbml5-python amd64 5.13.0+dfsg-1 [2931 kB] Get:1635 http://deb.debian.org/debian stretch/main amd64 libsmithwaterman0 amd64 0.0+20160702-1+b1 [33.0 kB] Get:1636 http://deb.debian.org/debian stretch/main amd64 libsmithwaterman-dev amd64 0.0+20160702-1+b1 [36.9 kB] Get:1637 http://deb.debian.org/debian stretch/main amd64 libsnp-sites1 amd64 2.3.2-1 [11.1 kB] Get:1638 http://deb.debian.org/debian stretch/main amd64 libsnp-sites1-dev amd64 2.3.2-1 [14.5 kB] Get:1639 http://deb.debian.org/debian stretch/main amd64 libtask-weaken-perl all 1.04-1 [7990 B] Get:1640 http://deb.debian.org/debian stretch/main amd64 libsoap-lite-perl all 1.20-1 [259 kB] Get:1641 http://deb.debian.org/debian stretch/main amd64 libtext-template-perl all 1.46-1 [53.1 kB] Get:1642 http://deb.debian.org/debian stretch/main amd64 libsoftware-license-perl all 0.103012-1 [112 kB] Get:1643 http://deb.debian.org/debian stretch/main amd64 libsort-key-top-perl amd64 0.08-1+b3 [19.4 kB] Get:1644 http://deb.debian.org/debian stretch/main amd64 libsort-naturally-perl all 1.03-1 [13.9 kB] Get:1645 http://deb.debian.org/debian stretch/main amd64 libspreadsheet-writeexcel-perl all 2.40-1 [550 kB] Get:1646 http://deb.debian.org/debian stretch/main amd64 libunicode-map-perl amd64 0.112-11+b3 [145 kB] Get:1647 http://deb.debian.org/debian stretch/main amd64 libspreadsheet-parseexcel-perl all 0.6500-1 [159 kB] Get:1648 http://deb.debian.org/debian stretch/main amd64 libsprng2 amd64 2.0a-10 [75.6 kB] Get:1649 http://deb.debian.org/debian stretch/main amd64 libsquizz amd64 0.99c+dfsg-1 [265 kB] Get:1650 http://deb.debian.org/debian stretch/main amd64 libsrf-dev amd64 0.1+dfsg-4 [15.3 kB] Get:1651 http://deb.debian.org/debian stretch/main amd64 libssl-doc all 1.1.0l-1~deb9u1 [1480 kB] Get:1652 http://deb.debian.org/debian stretch/main amd64 libssw-dev amd64 1.1-1+b1 [19.4 kB] Get:1653 http://deb.debian.org/debian stretch/main amd64 libssw-java amd64 1.1-1+b1 [13.8 kB] Get:1654 http://deb.debian.org/debian stretch/main amd64 libstaden-read-dev amd64 1.14.8-2 [390 kB] Get:1655 http://deb.debian.org/debian stretch/main amd64 libtree-dagnode-perl all 1.29-1 [60.6 kB] Get:1656 http://deb.debian.org/debian stretch/main amd64 libsvg-graph-perl all 0.02-2 [130 kB] Get:1657 http://deb.debian.org/debian stretch/main amd64 libswiss-perl all 1.67-1.1 [382 kB] Get:1658 http://deb.debian.org/debian stretch/main amd64 libtabixpp0 amd64 1.0.0-2 [7864 B] Get:1659 http://deb.debian.org/debian stretch/main amd64 libtabixpp-dev amd64 1.0.0-2 [7078 B] Get:1660 http://deb.debian.org/debian stretch/main amd64 libterm-readline-gnu-perl amd64 1.35-1 [106 kB] Get:1661 http://deb.debian.org/debian stretch/main amd64 libtest-deep-perl all 1.126-1 [48.4 kB] Get:1662 http://deb.debian.org/debian stretch/main amd64 libtest-differences-perl all 0.64-1 [18.0 kB] Get:1663 http://deb.debian.org/debian stretch/main amd64 libtest-file-perl all 1.442-1 [19.8 kB] Get:1664 http://deb.debian.org/debian stretch/main amd64 libtest-files-perl all 0.14-1 [11.2 kB] Get:1665 http://deb.debian.org/debian stretch/main amd64 libtest-warn-perl all 0.32-1 [15.1 kB] Get:1666 http://deb.debian.org/debian stretch/main amd64 libtest-simple-perl all 1.302075-1 [298 kB] Get:1667 http://deb.debian.org/debian stretch/main amd64 libtest-most-perl all 0.35-1 [24.5 kB] Get:1668 http://deb.debian.org/debian stretch/main amd64 libtest-output-perl all 1.03-1 [13.9 kB] Get:1669 http://deb.debian.org/debian stretch/main amd64 libtest-pod-perl all 1.51-1 [14.7 kB] Get:1670 http://deb.debian.org/debian stretch/main amd64 libtext-reform-perl all 1.20-3 [37.3 kB] Get:1671 http://deb.debian.org/debian stretch/main amd64 libtext-autoformat-perl all 1.740000-2 [34.8 kB] Get:1672 http://deb.debian.org/debian stretch/main amd64 libtext-charwidth-perl amd64 0.04-7+b5 [9870 B] Get:1673 http://deb.debian.org/debian stretch/main amd64 libtext-csv-perl all 1.33-2 [50.5 kB] Get:1674 http://deb.debian.org/debian stretch/main amd64 libtext-iconv-perl amd64 1.7-5+b4 [15.3 kB] Get:1675 http://deb.debian.org/debian stretch/main amd64 libtext-recordparser-perl all 1.6.5-1 [43.0 kB] Get:1676 http://deb.debian.org/debian stretch/main amd64 libtext-tabulardisplay-perl all 1.38-1 [14.1 kB] Get:1677 http://deb.debian.org/debian stretch/main amd64 libtext-wrapi18n-perl all 0.06-7.1 [8644 B] Get:1678 http://deb.debian.org/debian stretch/main amd64 libtfbs-perl amd64 0.7.0+dfsg-4 [227 kB] Get:1679 http://deb.debian.org/debian stretch/main amd64 libtype-tiny-xs-perl amd64 0.012-1+b2 [26.8 kB] Get:1680 http://deb.debian.org/debian stretch/main amd64 libunicode-utf8-perl amd64 0.60-1+b3 [22.3 kB] Get:1681 http://deb.debian.org/debian stretch/main amd64 libutempter0 amd64 1.1.6-3 [7812 B] Get:1682 http://deb.debian.org/debian stretch/main amd64 libvcflib1 amd64 1.0.0~rc1+dfsg1-3 [130 kB] Get:1683 http://deb.debian.org/debian stretch/main amd64 libvcflib-dev amd64 1.0.0~rc1+dfsg1-3 [14.6 kB] Get:1684 http://deb.debian.org/debian stretch/main amd64 libvcflib-tools amd64 1.0.0~rc1+dfsg1-3 [620 kB] Get:1685 http://deb.debian.org/debian stretch/main amd64 libvibrant6b amd64 6.1.20170106+dfsg1-0+deb9u1 [1275 kB] Get:1686 http://deb.debian.org/debian stretch/main amd64 libxmu-headers all 2:1.1.2-2 [51.9 kB] Get:1687 http://deb.debian.org/debian stretch/main amd64 libxmu-dev amd64 2:1.1.2-2 [65.0 kB] Get:1688 http://deb.debian.org/debian stretch/main amd64 libvibrant6-dev amd64 6.1.20170106+dfsg1-0+deb9u1 [1549 kB] Get:1689 http://deb.debian.org/debian stretch/main amd64 libvte-common all 1:0.28.2-5 [435 kB] Get:1690 http://deb.debian.org/debian stretch/main amd64 libvte9 amd64 1:0.28.2-5+b2 [618 kB] Get:1691 http://deb.debian.org/debian stretch/main amd64 libwacom-bin amd64 0.22-1+b1 [6150 B] Get:1692 http://deb.debian.org/debian stretch/main amd64 libwcs5 amd64 5.16-1 [263 kB] Get:1693 http://deb.debian.org/debian stretch/main amd64 libwebpdemux2 amd64 0.5.2-1 [73.7 kB] Get:1694 http://deb.debian.org/debian stretch/main amd64 libwww-form-urlencoded-xs-perl amd64 0.23-1 [11.2 kB] Get:1695 http://deb.debian.org/debian stretch/main amd64 libx11-doc all 2:1.6.4-3+deb9u1 [2201 kB] Get:1696 http://deb.debian.org/debian stretch/main amd64 libx11-protocol-perl all 0.56-7 [150 kB] Get:1697 http://deb.debian.org/debian stretch/main amd64 libxfont1 amd64 1:1.5.2-4 [136 kB] Get:1698 http://deb.debian.org/debian stretch/main amd64 libxml-regexp-perl all 0.04-1 [8370 B] Get:1699 http://deb.debian.org/debian stretch/main amd64 libxml-dom-perl all 1.44-2 [179 kB] Get:1700 http://deb.debian.org/debian stretch/main amd64 libxml-checker-perl all 0.13-6 [44.9 kB] Get:1701 http://deb.debian.org/debian stretch/main amd64 libxml-xpathengine-perl all 0.13-1 [39.1 kB] Get:1702 http://deb.debian.org/debian stretch/main amd64 libxml-dom-xpath-perl all 0.14-2 [9622 B] Get:1703 http://deb.debian.org/debian stretch/main amd64 libxml-filter-buffertext-perl all 1.01-5 [7354 B] Get:1704 http://deb.debian.org/debian stretch/main amd64 libxml-sax-writer-perl all 0.56-1 [23.7 kB] Get:1705 http://deb.debian.org/debian stretch/main amd64 libxmlrpc-lite-perl all 0.717-1 [26.1 kB] Get:1706 http://deb.debian.org/debian stretch/main amd64 libxom-java all 1.2.10-1 [170 kB] Get:1707 http://deb.debian.org/debian stretch/main amd64 libyaml-libyaml-perl amd64 0.63-2 [68.8 kB] Get:1708 http://deb.debian.org/debian stretch/main amd64 libyaml-tiny-perl all 1.70-1 [32.0 kB] Get:1709 http://deb.debian.org/debian stretch/main amd64 libzeus-jscl-java all 1.72-1 [129 kB] Get:1710 http://deb.debian.org/debian stretch/main amd64 lmodern all 2.004.5-3 [9461 kB] Get:1711 http://deb.debian.org/debian stretch/main amd64 swi-prolog-nox amd64 7.2.3+dfsg-6 [3025 kB] Get:1712 http://deb.debian.org/debian stretch/main amd64 swi-prolog-x amd64 7.2.3+dfsg-6 [2000 kB] Get:1713 http://deb.debian.org/debian stretch/main amd64 swi-prolog amd64 7.2.3+dfsg-6 [17.0 kB] Get:1714 http://deb.debian.org/debian stretch/main amd64 logol-bin amd64 1.7.5-1 [142 kB] Get:1715 http://deb.debian.org/debian stretch/main amd64 loki amd64 2.4.7.4-6+b1 [359 kB] Get:1716 http://deb.debian.org/debian stretch/main amd64 lsb-release all 9.20161125 [27.1 kB] Get:1717 http://deb.debian.org/debian stretch/main amd64 ltrsift amd64 1.0.2-7 [104 kB] Get:1718 http://deb.debian.org/debian stretch/main amd64 lynx-common all 2.8.9dev11-1 [1098 kB] Get:1719 http://deb.debian.org/debian stretch/main amd64 macs amd64 2.1.1.20160309-1 [1011 kB] Get:1720 http://deb.debian.org/debian stretch/main amd64 macsyfinder all 1.0.2-3 [7155 kB] Get:1721 http://deb.debian.org/debian stretch/main amd64 maffilter amd64 1.1.0-1+dfsg-2+b2 [277 kB] Get:1722 http://deb.debian.org/debian stretch/main amd64 mafft amd64 7.307-1 [889 kB] Get:1723 http://deb.debian.org/debian stretch/main amd64 mailutils amd64 1:3.1.1-1 [573 kB] Get:1724 http://deb.debian.org/debian stretch/main amd64 manpages-dev all 4.10-2 [2145 kB] Get:1725 http://deb.debian.org/debian stretch/main amd64 r-cran-codetools all 0.2-15-1 [46.2 kB] Get:1726 http://deb.debian.org/debian stretch/main amd64 r-cran-iterators all 1.0.8-1 [306 kB] Get:1727 http://deb.debian.org/debian stretch/main amd64 r-cran-foreach all 1.4.3-1 [371 kB] Get:1728 http://deb.debian.org/debian stretch/main amd64 r-cran-gam amd64 1.14-1 [203 kB] Get:1729 http://deb.debian.org/debian stretch/main amd64 r-cran-inline all 0.3.14-1 [91.8 kB] Get:1730 http://deb.debian.org/debian stretch/main amd64 seqtk amd64 1.2-1 [28.6 kB] Get:1731 http://deb.debian.org/debian stretch/main amd64 r-cran-rcppgsl amd64 0.3.2-2 [306 kB] Get:1732 http://deb.debian.org/debian stretch/main amd64 mapdamage all 2.0.6+dfsg-2 [38.8 kB] Get:1733 http://deb.debian.org/debian stretch/main amd64 mapsembler2 amd64 2.2.3+dfsg-3+b1 [250 kB] Get:1734 http://deb.debian.org/debian stretch/main amd64 maq amd64 0.7.1-7 [311 kB] Get:1735 http://deb.debian.org/debian stretch/main amd64 maqview amd64 0.2.5-7+b1 [113 kB] Get:1736 http://deb.debian.org/debian stretch/main amd64 massxpert-data all 3.6.1-1 [87.5 kB] Get:1737 http://deb.debian.org/debian stretch/main amd64 massxpert amd64 3.6.1-1 [877 kB] Get:1738 http://deb.debian.org/debian stretch/main amd64 progressivemauve amd64 1.2.0+4713-2+b2 [828 kB] Get:1739 http://deb.debian.org/debian stretch/main amd64 mauve-aligner amd64 2.4.0+4734-3 [493 kB] Get:1740 http://deb.debian.org/debian stretch/main amd64 mcl amd64 1:14-137-1+b1 [619 kB] Get:1741 http://deb.debian.org/debian stretch/main amd64 melting amd64 4.3.1+dfsg-2+b1 [663 kB] Get:1742 http://deb.debian.org/debian stretch/main amd64 mesa-utils amd64 8.3.0-3 [32.7 kB] Get:1743 http://deb.debian.org/debian stretch/main amd64 metaphlan2-data all 2.6.0+ds-2 [204 MB] Get:1744 http://deb.debian.org/debian stretch/main amd64 sphinx-common all 1.4.9-2 [350 kB] Get:1745 http://deb.debian.org/debian stretch/main amd64 pyqi all 0.3.2+dfsg-2 [72.0 kB] Get:1746 http://deb.debian.org/debian stretch/main amd64 python-colorama all 0.3.7-1 [25.7 kB] Get:1747 http://deb.debian.org/debian stretch/main amd64 python-click all 6.6-1 [56.1 kB] Get:1748 http://deb.debian.org/debian stretch/main amd64 python-configparser all 3.3.0r2-2 [62.1 kB] Get:1749 http://deb.debian.org/debian stretch/main amd64 python-future all 0.15.2-4 [347 kB] Get:1750 http://deb.debian.org/debian stretch/main amd64 python-biom-format amd64 2.1.5+dfsg-7 [183 kB] Get:1751 http://deb.debian.org/debian stretch/main amd64 python-msgpack amd64 0.4.8-1 [67.8 kB] Get:1752 http://deb.debian.org/debian stretch/main amd64 python-pandas-lib amd64 0.19.2-5.1 [2275 kB] Get:1753 http://deb.debian.org/debian stretch/main amd64 python-pandas all 0.19.2-5.1 [2616 kB] Get:1754 http://deb.debian.org/debian stretch/main amd64 metaphlan2 all 2.6.0+ds-2 [73.3 MB] Get:1755 http://deb.debian.org/debian stretch/main amd64 metastudent-data all 2.0.1-2 [225 MB] Get:1756 http://deb.debian.org/debian stretch/main amd64 metastudent all 2.0.1-4 [5979 kB] Get:1757 http://deb.debian.org/debian stretch/main amd64 mhap all 2.1.1+dfsg-1 [159 kB] Get:1758 http://deb.debian.org/debian stretch/main amd64 python-matplotlib-venn all 0.11.5-1 [28.8 kB] Get:1759 http://deb.debian.org/debian stretch/main amd64 python-sip amd64 4.18.1+dfsg-2 [88.7 kB] Get:1760 http://deb.debian.org/debian stretch/main amd64 python-qt4 amd64 4.11.4+dfsg-2+b1 [2198 kB] Get:1761 http://deb.debian.org/debian stretch/main amd64 microbegps all 1.0.0-2 [14.2 MB] Get:1762 http://deb.debian.org/debian stretch/main amd64 nast-ier amd64 20101212+dfsg1-1+b1 [20.9 kB] Get:1763 http://deb.debian.org/debian stretch/main amd64 wigeon all 20101212+dfsg1-1 [29.8 kB] Get:1764 http://deb.debian.org/debian stretch/main amd64 microbiomeutil all 20101212+dfsg1-1 [19.0 kB] Get:1765 http://deb.debian.org/debian stretch/main amd64 minia amd64 1.6906-1+b2 [67.9 kB] Get:1766 http://deb.debian.org/debian stretch/main amd64 miniasm amd64 0.2+dfsg-2+b1 [29.5 kB] Get:1767 http://deb.debian.org/debian stretch/main amd64 minimap amd64 0.2-3+b1 [26.8 kB] Get:1768 http://deb.debian.org/debian stretch/main amd64 mipe all 1.1-5 [62.4 kB] Get:1769 http://deb.debian.org/debian stretch/main amd64 mlv-smile amd64 1.47-4+b1 [190 kB] Get:1770 http://deb.debian.org/debian stretch/main amd64 mothur amd64 1.38.1.1-1 [4740 kB] Get:1771 http://deb.debian.org/debian stretch/main amd64 mrbayes amd64 3.2.6+dfsg-1+b4 [588 kB] Get:1772 http://deb.debian.org/debian stretch/main amd64 r-cran-gtools amd64 3.5.0-1 [139 kB] Get:1773 http://deb.debian.org/debian stretch/main amd64 r-cran-gdata all 2.17.0-1 [933 kB] Get:1774 http://deb.debian.org/debian stretch/main amd64 r-cran-bitops amd64 1.0-6-1 [22.3 kB] Get:1775 http://deb.debian.org/debian stretch/main amd64 r-cran-catools amd64 1.17.1-1+b1 [160 kB] Get:1776 http://deb.debian.org/debian stretch/main amd64 r-cran-kernsmooth amd64 2.23-15-2 [81.7 kB] Get:1777 http://deb.debian.org/debian stretch/main amd64 r-cran-gplots all 3.0.1-2 [522 kB] Get:1778 http://deb.debian.org/debian stretch/main amd64 r-cran-rocr all 1.0-7-2 [161 kB] Get:1779 http://deb.debian.org/debian stretch/main amd64 murasaki-common all 1.68.6-6 [144 kB] Get:1780 http://deb.debian.org/debian stretch/main amd64 murasaki amd64 1.68.6-6+b4 [479 kB] Get:1781 http://deb.debian.org/debian stretch/main amd64 muscle amd64 1:3.8.31+dfsg-2 [151 kB] Get:1782 http://deb.debian.org/debian stretch/main amd64 mustang amd64 3.2.3-1 [113 kB] Get:1783 http://deb.debian.org/debian stretch/main amd64 nanopolish amd64 0.5.0-1+b1 [1915 kB] Get:1784 http://deb.debian.org/debian stretch/main amd64 ncbi-entrez-direct amd64 6.10.20170123+ds-1 [577 kB] Get:1785 http://deb.debian.org/debian stretch/main amd64 ncbi-tools-bin amd64 6.1.20170106+dfsg1-0+deb9u1 [521 kB] Get:1786 http://deb.debian.org/debian stretch/main amd64 ncbi-tools-x11 amd64 6.1.20170106+dfsg1-0+deb9u1 [1120 kB] Get:1787 http://deb.debian.org/debian stretch/main amd64 ncl-tools amd64 2.1.18+dfsg-2+b1 [104 kB] Get:1788 http://deb.debian.org/debian stretch/main amd64 ncoils amd64 2002-4+b1 [21.4 kB] Get:1789 http://deb.debian.org/debian stretch/main amd64 netpbm amd64 2:10.0-15.3+b2 [1029 kB] Get:1790 http://deb.debian.org/debian stretch/main amd64 njplot amd64 2.4-7 [95.3 kB] Get:1791 http://deb.debian.org/debian stretch/main amd64 notification-daemon amd64 3.20.0-1+b1 [60.5 kB] Get:1792 http://deb.debian.org/debian stretch/main amd64 octave-info all 4.0.3-3 [1161 kB] Get:1793 http://deb.debian.org/debian stretch/main amd64 paraclu amd64 9-1+b2 [10.5 kB] Get:1794 http://deb.debian.org/debian stretch/main amd64 parafly amd64 0.0.2013.01.21-3+b1 [16.4 kB] Get:1795 http://deb.debian.org/debian stretch/main amd64 parsinsert amd64 1.04-2 [59.8 kB] Get:1796 http://deb.debian.org/debian stretch/main amd64 phipack amd64 0.0.20160614-2 [50.6 kB] Get:1797 http://deb.debian.org/debian stretch/main amd64 parsnp amd64 1.2+dfsg-3 [528 kB] Get:1798 http://deb.debian.org/debian stretch/main amd64 python-pbalign all 0.3.0-1 [37.2 kB] Get:1799 http://deb.debian.org/debian stretch/main amd64 pbalign all 0.3.0-1 [7482 B] Get:1800 http://deb.debian.org/debian stretch/main amd64 pbbamtools amd64 0.7.4+ds-1 [116 kB] Get:1801 http://deb.debian.org/debian stretch/main amd64 pbbarcode amd64 0.8.0-4 [26.5 kB] Get:1802 http://deb.debian.org/debian stretch/main amd64 pbdagcon amd64 0.3+20161121+ds-1 [322 kB] Get:1803 http://deb.debian.org/debian stretch/main amd64 python-pbconsensuscore amd64 1.0.2-2 [651 kB] Get:1804 http://deb.debian.org/debian stretch/main amd64 python-pbgenomicconsensus all 2.1.0-1 [45.7 kB] Get:1805 http://deb.debian.org/debian stretch/main amd64 pbgenomicconsensus all 2.1.0-1 [26.6 kB] Get:1806 http://deb.debian.org/debian stretch/main amd64 python-pbh5tools amd64 0.8.0+dfsg-5 [29.0 kB] Get:1807 http://deb.debian.org/debian stretch/main amd64 pbh5tools all 0.8.0+dfsg-5 [8282 B] Get:1808 http://deb.debian.org/debian stretch/main amd64 python-pbsuite-utils all 15.8.24+dfsg-2 [508 kB] Get:1809 http://deb.debian.org/debian stretch/main amd64 pbjelly all 15.8.24+dfsg-2 [1210 kB] Get:1810 http://deb.debian.org/debian stretch/main amd64 python-pbbanana all 15.8.24+dfsg-2 [19.3 kB] Get:1811 http://deb.debian.org/debian stretch/main amd64 python-sortedcontainers all 1.5.7-1 [26.2 kB] Get:1812 http://deb.debian.org/debian stretch/main amd64 python-intervaltree all 2.1.0-2 [32.0 kB] Get:1813 http://deb.debian.org/debian stretch/main amd64 python-intervaltree-bio all 1.0.1-1 [7818 B] Get:1814 http://deb.debian.org/debian stretch/main amd64 pbhoney all 15.8.24+dfsg-2 [1311 kB] Get:1815 http://deb.debian.org/debian stretch/main amd64 pbsim amd64 1.0.3-2 [24.5 kB] Get:1816 http://deb.debian.org/debian stretch/main amd64 pbsuite all 15.8.24+dfsg-2 [4732 B] Get:1817 http://deb.debian.org/debian stretch/main amd64 pdb2pqr amd64 2.1.1+dfsg-2 [373 kB] Get:1818 http://deb.debian.org/debian stretch/main amd64 perl-doc all 5.24.1-3+deb9u7 [7145 kB] Get:1819 http://deb.debian.org/debian stretch/main amd64 perl-tk amd64 1:804.033-1+b3 [1943 kB] Get:1820 http://deb.debian.org/debian stretch/main amd64 perlprimer all 1.2.3-1 [96.7 kB] Get:1821 http://deb.debian.org/debian stretch/main amd64 perm amd64 0.4.0-2 [121 kB] Get:1822 http://deb.debian.org/debian stretch/main amd64 phybin amd64 0.3-1+b1 [1785 kB] Get:1823 http://deb.debian.org/debian stretch/main amd64 phylip amd64 1:3.696+dfsg-5 [942 kB] Get:1824 http://deb.debian.org/debian stretch/main amd64 phyml amd64 3:3.2.0+dfsg-7+b1 [1298 kB] Get:1825 http://deb.debian.org/debian stretch/main amd64 physamp amd64 0.2.0-1+b1 [233 kB] Get:1826 http://deb.debian.org/debian stretch/main amd64 phyutility amd64 2.7.3-1 [897 kB] Get:1827 http://deb.debian.org/debian stretch/main amd64 picard-tools all 2.8.1+dfsg-1 [7788 B] Get:1828 http://deb.debian.org/debian stretch/main amd64 piler amd64 0~20140707-1+b1 [40.2 kB] Get:1829 http://deb.debian.org/debian stretch/main amd64 pirs-profiles all 2.0.2+dfsg-5.1 [2566 kB] Get:1830 http://deb.debian.org/debian stretch/main amd64 ttf-liberation all 1:1.07.4-2 [9878 B] Get:1831 http://deb.debian.org/debian stretch/main amd64 pirs amd64 2.0.2+dfsg-5.1+b1 [111 kB] Get:1832 http://deb.debian.org/debian stretch/main amd64 placnet all 1.03-2 [10.5 kB] Get:1833 http://deb.debian.org/debian stretch/main amd64 python-tk amd64 2.7.13-1 [27.4 kB] Get:1834 http://deb.debian.org/debian stretch/main amd64 plasmidomics all 0.2.0-5 [6844 B] Get:1835 http://deb.debian.org/debian stretch/main amd64 plast amd64 2.3.1+dfsg-4 [609 kB] Get:1836 http://deb.debian.org/debian stretch/main amd64 plink amd64 1.07-7 [1186 kB] Get:1837 http://deb.debian.org/debian stretch/main amd64 plink1.9 amd64 1.90~b3.45-170113-1 [866 kB] Get:1838 http://deb.debian.org/debian stretch/main amd64 python-pmw all 1.3.2-6 [120 kB] Get:1839 http://deb.debian.org/debian stretch/main amd64 python-opengl all 3.1.0+dfsg-1 [501 kB] Get:1840 http://deb.debian.org/debian stretch/main amd64 pymol-data all 1.8.4.0+dfsg-1 [1322 kB] Get:1841 http://deb.debian.org/debian stretch/main amd64 pymol amd64 1.8.4.0+dfsg-1 [3794 kB] Get:1842 http://deb.debian.org/debian stretch/main amd64 python-lxml amd64 3.7.1-1 [903 kB] Get:1843 http://deb.debian.org/debian stretch/main amd64 python-openbabel amd64 2.3.2+dfsg-3 [809 kB] Get:1844 http://deb.debian.org/debian stretch/main amd64 plip all 1.3.3+dfsg-1 [53.2 kB] Get:1845 http://deb.debian.org/debian stretch/main amd64 poa amd64 2.0+20060928-4+b1 [45.4 kB] Get:1846 http://deb.debian.org/debian stretch/main amd64 python-seaborn all 0.7.1-4 [128 kB] Get:1847 http://deb.debian.org/debian stretch/main amd64 poretools all 0.6.0+dfsg-2 [19.0 kB] Get:1848 http://deb.debian.org/debian stretch/main amd64 prank amd64 0.0.150803-2 [374 kB] Get:1849 http://deb.debian.org/debian stretch/main amd64 preview-latex-style all 11.90-1 [200 kB] Get:1850 http://deb.debian.org/debian stretch/main amd64 prime-phylo amd64 1.0.11-4+b3 [856 kB] Get:1851 http://deb.debian.org/debian stretch/main amd64 proalign amd64 0.603-2 [149 kB] Get:1852 http://deb.debian.org/debian stretch/main amd64 probabel amd64 0.4.5-3+b1 [544 kB] Get:1853 http://deb.debian.org/debian stretch/main amd64 probalign amd64 1.4-5 [65.4 kB] Get:1854 http://deb.debian.org/debian stretch/main amd64 probcons amd64 1.12-11 [107 kB] Get:1855 http://deb.debian.org/debian stretch/main amd64 proda amd64 1.0-10 [60.1 kB] Get:1856 http://deb.debian.org/debian stretch/main amd64 texlive-base all 2016.20170123-5 [15.8 MB] Get:1857 http://deb.debian.org/debian stretch/main amd64 texlive-latex-base all 2016.20170123-5 [861 kB] Get:1858 http://deb.debian.org/debian stretch/main amd64 texlive-generic-recommended all 2016.20170123-5 [2889 kB] Get:1859 http://deb.debian.org/debian stretch/main amd64 texlive-latex-recommended all 2016.20170123-5 [13.2 MB] Get:1860 http://deb.debian.org/debian stretch/main amd64 texlive-pictures all 2016.20170123-5 [3908 kB] Get:1861 http://deb.debian.org/debian stretch/main amd64 texlive-pstricks all 2016.20170123-5 [26.2 MB] Get:1862 http://deb.debian.org/debian stretch/main amd64 prosper all 1.00.4+cvs.2007.05.01-4.1 [420 kB] Get:1863 http://deb.debian.org/debian stretch/main amd64 proteinortho amd64 5.15+dfsg-1 [251 kB] Get:1864 http://deb.debian.org/debian stretch/main amd64 prottest all 3.4.2+dfsg-2 [347 kB] Get:1865 http://deb.debian.org/debian stretch/main amd64 ps2eps amd64 1.68+binaryfree-2 [37.9 kB] Get:1866 http://deb.debian.org/debian stretch/main amd64 psmisc amd64 22.21-2.1+b2 [123 kB] Get:1867 http://deb.debian.org/debian stretch/main amd64 pstoedit amd64 3.70-3+b2 [125 kB] Get:1868 http://deb.debian.org/debian stretch/main amd64 python-wxversion all 3.0.2.0+dfsg-4 [114 kB] Get:1869 http://deb.debian.org/debian stretch/main amd64 python-wxgtk3.0 amd64 3.0.2.0+dfsg-4 [5270 kB] Get:1870 http://deb.debian.org/debian stretch/main amd64 python-lmfit all 0.9.5+dfsg-2 [84.5 kB] Get:1871 http://deb.debian.org/debian stretch/main amd64 pycorrfit amd64 0.9.9+dfsg-2 [820 kB] Get:1872 http://deb.debian.org/debian stretch/main amd64 python-configobj all 5.0.6-2 [35.2 kB] Get:1873 http://deb.debian.org/debian stretch/main amd64 python-ply all 3.9-1 [64.3 kB] Get:1874 http://deb.debian.org/debian stretch/main amd64 python-py all 1.4.32-3 [82.8 kB] Get:1875 http://deb.debian.org/debian stretch/main amd64 python-pytest all 3.0.6-1 [184 kB] Get:1876 http://deb.debian.org/debian stretch/main amd64 python-astropy amd64 1.3-8 [2716 kB] Get:1877 http://deb.debian.org/debian stretch/main amd64 python-multipletau all 0.1.7+ds-1 [11.0 kB] Get:1878 http://deb.debian.org/debian stretch/main amd64 pyscanfcs amd64 0.2.3-3 [541 kB] Get:1879 http://deb.debian.org/debian stretch/main amd64 python-antlr all 2.7.7+dfsg-7 [25.8 kB] Get:1880 http://deb.debian.org/debian stretch/main amd64 python-appdirs all 1.4.0-3 [11.3 kB] Get:1881 http://deb.debian.org/debian stretch/main amd64 python-babel-localedata all 2.3.4+dfsg.1-2 [3402 kB] Get:1882 http://deb.debian.org/debian stretch/main amd64 python-babel all 2.3.4+dfsg.1-2 [82.5 kB] Get:1883 http://deb.debian.org/debian stretch/main amd64 python-biopython-doc all 1.68+dfsg-3 [11.8 MB] Get:1884 http://deb.debian.org/debian stretch/main amd64 python-bs4 all 4.5.3-1 [86.7 kB] Get:1885 http://deb.debian.org/debian stretch/main amd64 python-bz2file all 0.98-1 [7646 B] Get:1886 http://deb.debian.org/debian stretch/main amd64 python-cairo amd64 1.8.8-2.2 [42.5 kB] Get:1887 http://deb.debian.org/debian stretch/main amd64 python-cffi-backend amd64 1.9.1-2 [69.0 kB] Get:1888 http://deb.debian.org/debian stretch/main amd64 python-cobra-data all 0.5.9-1 [763 kB] Get:1889 http://deb.debian.org/debian stretch/main amd64 python-cobra amd64 0.5.9-1 [172 kB] Get:1890 http://deb.debian.org/debian stretch/main amd64 python-idna all 2.2-1 [32.6 kB] Get:1891 http://deb.debian.org/debian stretch/main amd64 python-ipaddress all 1.0.17-1 [18.1 kB] Get:1892 http://deb.debian.org/debian stretch/main amd64 python-pyasn1 all 0.1.9-2 [51.8 kB] Get:1893 http://deb.debian.org/debian stretch/main amd64 python-setuptools all 33.1.1-1 [297 kB] Get:1894 http://deb.debian.org/debian stretch/main amd64 python-cryptography amd64 1.7.1-3+deb9u2 [212 kB] Get:1895 http://deb.debian.org/debian stretch/main amd64 libdsdp-5.8gf amd64 5.8-9.4 [189 kB] Get:1896 http://deb.debian.org/debian stretch/main amd64 python-cvxopt amd64 1.1.4-1.5+deb9u1 [1338 kB] Get:1897 http://deb.debian.org/debian stretch/main amd64 python-dendropy all 4.2.0+dfsg-1 [7496 kB] Get:1898 http://deb.debian.org/debian stretch/main amd64 python2.7-dev amd64 2.7.13-2+deb9u3 [290 kB] Get:1899 http://deb.debian.org/debian stretch/main amd64 python-dev amd64 2.7.13-2 [1126 B] Get:1900 http://deb.debian.org/debian stretch/main amd64 python-roman all 2.0.0-2 [8130 B] Get:1901 http://deb.debian.org/debian stretch/main amd64 python-docutils all 0.13.1+dfsg-2 [373 kB] Get:1902 http://deb.debian.org/debian stretch/main amd64 python-fabio amd64 0.4.0+dfsg-2 [255 kB] Get:1903 http://deb.debian.org/debian stretch/main amd64 python-gobject-2 amd64 2.28.6-13 [289 kB] Get:1904 http://deb.debian.org/debian stretch/main amd64 python-gtk2 amd64 2.24.0-5.1 [642 kB] Get:1905 http://deb.debian.org/debian stretch/main amd64 python-glade2 amd64 2.24.0-5.1 [43.4 kB] Get:1906 http://deb.debian.org/debian stretch/main amd64 python-gmpy amd64 1.17-3 [74.3 kB] Get:1907 http://deb.debian.org/debian stretch/main amd64 python-webencodings all 0.5-2 [10.3 kB] Get:1908 http://deb.debian.org/debian stretch/main amd64 python-html5lib all 0.999999999-1 [88.0 kB] Get:1909 http://deb.debian.org/debian stretch/main amd64 python-imagesize all 0.7.1-1 [3814 B] Get:1910 http://deb.debian.org/debian stretch/main amd64 python-pil amd64 4.0.0-4+deb9u1 [376 kB] Get:1911 http://deb.debian.org/debian stretch/main amd64 python-imaging all 4.0.0-4+deb9u1 [50.5 kB] Get:1912 http://deb.debian.org/debian stretch/main amd64 python-jdcal all 1.0-1.2~deb9u1 [7756 B] Get:1913 http://deb.debian.org/debian stretch/main amd64 python-markupsafe amd64 0.23-3 [14.4 kB] Get:1914 http://deb.debian.org/debian stretch/main amd64 python-jinja2 all 2.8-1 [111 kB] Get:1915 http://deb.debian.org/debian stretch/main amd64 python-mako all 1.0.6+ds1-2 [62.1 kB] Get:1916 http://deb.debian.org/debian stretch/main amd64 python-natsort-doc all 4.0.3-2 [47.7 kB] Get:1917 http://deb.debian.org/debian stretch/main amd64 python-nose all 1.3.7-2 [132 kB] Get:1918 http://deb.debian.org/debian stretch/main amd64 python-numexpr amd64 2.6.1-4 [142 kB] Get:1919 http://deb.debian.org/debian stretch/main amd64 python-numpy-doc all 1:1.12.1-3 [3250 kB] Get:1920 http://deb.debian.org/debian stretch/main amd64 python-openpyxl all 2.3.0-3 [199 kB] Get:1921 http://deb.debian.org/debian stretch/main amd64 python-openssl all 16.2.0-1 [43.7 kB] Get:1922 http://deb.debian.org/debian stretch/main amd64 python-patsy all 0.4.1+git34-ga5b54c2-1 [171 kB] Get:1923 http://deb.debian.org/debian stretch/main amd64 python-pyglet all 1.1.4.dfsg-3 [736 kB] Get:1924 http://deb.debian.org/debian stretch/main amd64 python-pygraphviz amd64 1.4~rc1-1 [75.9 kB] Get:1925 http://deb.debian.org/debian stretch/main amd64 python-pytools all 2016.2.6-1 [34.7 kB] Get:1926 http://deb.debian.org/debian stretch/main amd64 python-pyopencl amd64 2016.1+git20161130-1 [313 kB] Get:1927 http://deb.debian.org/debian stretch/main amd64 python-pyopencl-doc all 2016.1+git20161130-1 [144 kB] Get:1928 http://deb.debian.org/debian stretch/main amd64 rdkit-data all 201603.5-2 [6705 kB] Get:1929 http://deb.debian.org/debian stretch/main amd64 python-rdkit amd64 201603.5-2 [3380 kB] Get:1930 http://deb.debian.org/debian stretch/main amd64 python-renderpm amd64 3.3.0-2+deb9u1 [47.3 kB] Get:1931 http://deb.debian.org/debian stretch/main amd64 python-singledispatch all 3.4.0.3-2 [9690 B] Get:1932 http://deb.debian.org/debian stretch/main amd64 python-rpy2 amd64 2.8.5-1 [155 kB] Get:1933 http://deb.debian.org/debian stretch/main amd64 python-ruffus all 2.6.3+dfsg-4 [98.3 kB] Get:1934 http://deb.debian.org/debian stretch/main amd64 python-screed all 0.9-2 [71.7 kB] Get:1935 http://deb.debian.org/debian stretch/main amd64 python-simplejson amd64 3.10.0-1 [70.5 kB] Get:1936 http://deb.debian.org/debian stretch/main amd64 python-sklearn-lib amd64 0.18-5 [1578 kB] Get:1937 http://deb.debian.org/debian stretch/main amd64 python-sklearn all 0.18-5 [1383 kB] Get:1938 http://deb.debian.org/debian stretch/main amd64 python-alabaster all 0.7.8-1 [18.4 kB] Get:1939 http://deb.debian.org/debian stretch/main amd64 python-sphinx all 1.4.9-2 [434 kB] Get:1940 http://deb.debian.org/debian stretch/main amd64 python-sympy-doc all 1.0-3 [4876 kB] Get:1941 http://deb.debian.org/debian stretch/main amd64 python-tables-lib amd64 3.3.0-5 [402 kB] Get:1942 http://deb.debian.org/debian stretch/main amd64 python-tables-data all 3.3.0-5 [50.9 kB] Get:1943 http://deb.debian.org/debian stretch/main amd64 python-tables all 3.3.0-5 [341 kB] Get:1944 http://deb.debian.org/debian stretch/main amd64 python-xlrd all 1.0.0-1 [107 kB] Get:1945 http://deb.debian.org/debian stretch/main amd64 python-xlwt all 0.7.5+debian1-1 [85.1 kB] Get:1946 http://deb.debian.org/debian stretch/main amd64 python3-bs4 all 4.5.3-1 [86.6 kB] Get:1947 http://deb.debian.org/debian stretch/main amd64 python3-urllib3 all 1.19.1-1 [77.6 kB] Get:1948 http://deb.debian.org/debian stretch/main amd64 python3-chardet all 2.3.0-2 [96.0 kB] Get:1949 http://deb.debian.org/debian stretch/main amd64 python3-requests all 2.12.4-1 [101 kB] Get:1950 http://deb.debian.org/debian stretch/main amd64 python3-cachecontrol all 0.11.7-1 [15.2 kB] Get:1951 http://deb.debian.org/debian stretch/main amd64 python3-scipy amd64 0.18.1-2 [8534 kB] Get:1952 http://deb.debian.org/debian stretch/main amd64 python3-csb all 1.2.3+dfsg-3 [2175 kB] Get:1953 http://deb.debian.org/debian stretch/main amd64 python3-cycler all 0.10.0-1 [7556 B] Get:1954 http://deb.debian.org/debian stretch/main amd64 python3-dateutil all 2.5.3-2 [45.2 kB] Get:1955 http://deb.debian.org/debian stretch/main amd64 python3.5-doc all 3.5.3-1+deb9u1 [5458 kB] Get:1956 http://deb.debian.org/debian stretch/main amd64 python3-doc all 3.5.3-1 [18.8 kB] Get:1957 http://deb.debian.org/debian stretch/main amd64 python3-fast5 amd64 0.5.8-1+b2 [212 kB] Get:1958 http://deb.debian.org/debian stretch/main amd64 python3-webencodings all 0.5-2 [10.4 kB] Get:1959 http://deb.debian.org/debian stretch/main amd64 python3-html5lib all 0.999999999-1 [86.3 kB] Get:1960 http://deb.debian.org/debian stretch/main amd64 python3-lockfile all 1:0.12.2-2 [17.1 kB] Get:1961 http://deb.debian.org/debian stretch/main amd64 python3-pyparsing all 2.1.10+dfsg1-1 [88.6 kB] Get:1962 http://deb.debian.org/debian stretch/main amd64 python3-tz all 2016.7-0.3 [27.1 kB] Get:1963 http://deb.debian.org/debian stretch/main amd64 python3-matplotlib amd64 2.0.0+dfsg1-2 [1590 kB] Get:1964 http://deb.debian.org/debian stretch/main amd64 python3-natsort all 4.0.3-2 [25.1 kB] Get:1965 http://deb.debian.org/debian stretch/main amd64 python3-ngs amd64 1.3.0-2 [18.1 kB] Get:1966 http://deb.debian.org/debian stretch/main amd64 python3-numexpr amd64 2.6.1-4 [137 kB] Get:1967 http://deb.debian.org/debian stretch/main amd64 python3-pandas-lib amd64 0.19.2-5.1 [2225 kB] Get:1968 http://deb.debian.org/debian stretch/main amd64 python3-pandas all 0.19.2-5.1 [2615 kB] Get:1969 http://deb.debian.org/debian stretch/main amd64 python3-pil amd64 4.0.0-4+deb9u1 [377 kB] Get:1970 http://deb.debian.org/debian stretch/main amd64 python3-py all 1.4.32-3 [82.9 kB] Get:1971 http://deb.debian.org/debian stretch/main amd64 python3-pyfaidx all 0.4.8.1-1 [21.3 kB] Get:1972 http://deb.debian.org/debian stretch/main amd64 python3-pytest all 3.0.6-1 [184 kB] Get:1973 http://deb.debian.org/debian stretch/main amd64 python3-pyvcf amd64 0.6.8-1 [38.7 kB] Get:1974 http://deb.debian.org/debian stretch/main amd64 python3-renderpm amd64 3.3.0-2+deb9u1 [47.4 kB] Get:1975 http://deb.debian.org/debian stretch/main amd64 python3-skbio amd64 0.5.1-2 [559 kB] Get:1976 http://deb.debian.org/debian stretch/main amd64 python3-tables-lib amd64 3.3.0-5 [397 kB] Get:1977 http://deb.debian.org/debian stretch/main amd64 python3-tables all 3.3.0-5 [331 kB] Get:1978 http://deb.debian.org/debian stretch/main amd64 python3-tk amd64 3.5.3-1 [26.7 kB] Get:1979 http://deb.debian.org/debian stretch/main amd64 python3-yaml amd64 3.12-1 [108 kB] Get:1980 http://deb.debian.org/debian stretch/main amd64 qt-at-spi amd64 0.4.0-5 [61.6 kB] Get:1981 http://deb.debian.org/debian stretch/main amd64 qt5-gtk-platformtheme amd64 5.7.1+dfsg-3+deb9u2 [130 kB] Get:1982 http://deb.debian.org/debian stretch/main amd64 qtltools amd64 1.1+dfsg-1 [700 kB] Get:1983 http://deb.debian.org/debian stretch/main amd64 qttranslations5-l10n all 5.7.1~20161021-1 [1219 kB] Get:1984 http://deb.debian.org/debian stretch/main amd64 r-cran-boot all 1.3-18-2 [577 kB] Get:1985 http://deb.debian.org/debian stretch/main amd64 r-cran-foreign amd64 0.8.67-1 [211 kB] Get:1986 http://deb.debian.org/debian stretch/main amd64 r-cran-nlme amd64 3.1.129-1 [2042 kB] Get:1987 http://deb.debian.org/debian stretch/main amd64 r-cran-mgcv amd64 1.8-16-1 [2106 kB] Get:1988 http://deb.debian.org/debian stretch/main amd64 r-cran-class amd64 7.3-14-1 [80.9 kB] Get:1989 http://deb.debian.org/debian stretch/main amd64 r-cran-nnet amd64 7.3-12-1 [96.9 kB] Get:1990 http://deb.debian.org/debian stretch/main amd64 r-cran-spatial amd64 7.3-11-1 [118 kB] Get:1991 http://deb.debian.org/debian stretch/main amd64 r-recommended all 3.3.3-1 [2706 B] Get:1992 http://deb.debian.org/debian stretch/main amd64 r-base all 3.3.3-1 [40.7 kB] Get:1993 http://deb.debian.org/debian stretch/main amd64 xauth amd64 1:1.0.9-1+b2 [39.6 kB] Get:1994 http://deb.debian.org/debian stretch/main amd64 r-base-dev all 3.3.3-1 [4402 B] Get:1995 http://deb.debian.org/debian stretch/main amd64 r-bioc-biocgenerics all 0.20.0-1 [483 kB] Get:1996 http://deb.debian.org/debian stretch/main amd64 r-bioc-biobase amd64 2.34.0-1 [1989 kB] Get:1997 http://deb.debian.org/debian stretch/main amd64 r-bioc-s4vectors amd64 0.12.1-2+b1 [1114 kB] Get:1998 http://deb.debian.org/debian stretch/main amd64 r-bioc-iranges amd64 2.8.1-1+b1 [1438 kB] Get:1999 http://deb.debian.org/debian stretch/main amd64 r-cran-dbi amd64 0.5-1-1 [332 kB] Get:2000 http://deb.debian.org/debian stretch/main amd64 r-cran-memoise all 1.0.0-1 [24.4 kB] Get:2001 http://deb.debian.org/debian stretch/main amd64 r-cran-rsqlite amd64 1.1-2-1 [745 kB] Get:2002 http://deb.debian.org/debian stretch/main amd64 r-bioc-annotationdbi all 1.36.1-2 [4190 kB] Get:2003 http://deb.debian.org/debian stretch/main amd64 r-cran-xml amd64 3.98-1.5-1 [1652 kB] Get:2004 http://deb.debian.org/debian stretch/main amd64 r-cran-xtable all 1:1.8-2-1 [694 kB] Get:2005 http://deb.debian.org/debian stretch/main amd64 r-cran-rcurl amd64 1.95-4.8-2 [607 kB] Get:2006 http://deb.debian.org/debian stretch/main amd64 r-bioc-annotate amd64 1.52.1+dfsg-1 [1908 kB] Get:2007 http://deb.debian.org/debian stretch/main amd64 r-bioc-biocinstaller all 1.24.0-1 [59.3 kB] Get:2008 http://deb.debian.org/debian stretch/main amd64 r-cran-httpuv amd64 1.3.3-3 [227 kB] Get:2009 http://deb.debian.org/debian stretch/main amd64 r-cran-jsonlite amd64 1.2-1 [589 kB] Get:2010 http://deb.debian.org/debian stretch/main amd64 r-cran-r6 all 2.2.0-2 [128 kB] Get:2011 http://deb.debian.org/debian stretch/main amd64 r-cran-sourcetools amd64 0.1.5-1 [43.0 kB] Get:2012 http://deb.debian.org/debian stretch/main amd64 r-cran-shiny all 1.0.0+dfsg-1 [1025 kB] Get:2013 http://deb.debian.org/debian stretch/main amd64 r-bioc-interactivedisplaybase all 1.12.0-1 [33.4 kB] Get:2014 http://deb.debian.org/debian stretch/main amd64 r-cran-curl amd64 2.3-1 [353 kB] Get:2015 http://deb.debian.org/debian stretch/main amd64 r-cran-openssl amd64 0.9.6-1 [552 kB] Get:2016 http://deb.debian.org/debian stretch/main amd64 r-cran-httr all 1.2.1-1 [262 kB] Get:2017 http://deb.debian.org/debian stretch/main amd64 r-bioc-annotationhub all 2.6.4-1 [388 kB] Get:2018 http://deb.debian.org/debian stretch/main amd64 r-cran-lambda.r all 1.1.9-1 [66.7 kB] Get:2019 http://deb.debian.org/debian stretch/main amd64 r-cran-futile.options all 1.0.0-2 [15.4 kB] Get:2020 http://deb.debian.org/debian stretch/main amd64 r-cran-futile.logger all 1.4.3-1 [90.8 kB] Get:2021 http://deb.debian.org/debian stretch/main amd64 r-cran-snow all 1:0.4.2-1 [65.0 kB] Get:2022 http://deb.debian.org/debian stretch/main amd64 r-bioc-biocparallel all 1.8.1-1 [633 kB] Get:2023 http://deb.debian.org/debian stretch/main amd64 r-bioc-biomart all 2.30.0-1 [183 kB] Get:2024 http://deb.debian.org/debian stretch/main amd64 r-bioc-biomformat all 1.2.0-1 [167 kB] Get:2025 http://deb.debian.org/debian stretch/main amd64 r-bioc-xvector amd64 0.14.0-1+b1 [338 kB] Get:2026 http://deb.debian.org/debian stretch/main amd64 r-bioc-biostrings amd64 2.42.1-1 [13.5 MB] Get:2027 http://deb.debian.org/debian stretch/main amd64 r-bioc-genomeinfodb all 1.10.3-1 [14.7 MB] Get:2028 http://deb.debian.org/debian stretch/main amd64 r-bioc-genomicranges amd64 1.26.2-1+b1 [1474 kB] Get:2029 http://deb.debian.org/debian stretch/main amd64 r-bioc-summarizedexperiment all 1.4.0-2 [1354 kB] Get:2030 http://deb.debian.org/debian stretch/main amd64 r-bioc-rsamtools amd64 1.26.1-2+b1 [3241 kB] Get:2031 http://deb.debian.org/debian stretch/main amd64 r-bioc-genomicalignments amd64 1.10.0-1+b1 [1487 kB] Get:2032 http://deb.debian.org/debian stretch/main amd64 r-bioc-rtracklayer amd64 1.34.1-1 [1831 kB] Get:2033 http://deb.debian.org/debian stretch/main amd64 r-bioc-genomicfeatures all 1.26.2-1 [1054 kB] Get:2034 http://deb.debian.org/debian stretch/main amd64 r-bioc-bsgenome all 1.42.0-2 [6483 kB] Get:2035 http://deb.debian.org/debian stretch/main amd64 r-bioc-variantannotation amd64 1.20.2-1+b1 [2233 kB] Get:2036 http://deb.debian.org/debian stretch/main amd64 r-bioc-ensembldb all 1.6.2-1 [1254 kB] Get:2037 http://deb.debian.org/debian stretch/main amd64 r-bioc-biovizbase amd64 1.22.0-2 [2537 kB] Get:2038 http://deb.debian.org/debian stretch/main amd64 r-cran-fastcluster amd64 1.1.22-1 [179 kB] Get:2039 http://deb.debian.org/debian stretch/main amd64 r-cran-matrixstats amd64 0.51.0-1 [567 kB] Get:2040 http://deb.debian.org/debian stretch/main amd64 r-bioc-gviz all 1.18.1-1 [4296 kB] Get:2041 http://deb.debian.org/debian stretch/main amd64 r-bioc-cummerbund all 2.16.0-2 [2127 kB] Get:2042 http://deb.debian.org/debian stretch/main amd64 r-bioc-genefilter amd64 1.56.0-1 [1538 kB] Get:2043 http://deb.debian.org/debian stretch/main amd64 r-bioc-geneplotter all 1.52.0-2 [1492 kB] Get:2044 http://deb.debian.org/debian stretch/main amd64 r-bioc-deseq2 amd64 1.14.1-1 [1642 kB] Get:2045 http://deb.debian.org/debian stretch/main amd64 r-bioc-dnacopy amd64 1.48.0-1 [375 kB] Get:2046 http://deb.debian.org/debian stretch/main amd64 r-cran-blockmodeling amd64 0.1.8-1 [192 kB] Get:2047 http://deb.debian.org/debian stretch/main amd64 r-cran-crayon amd64 1.3.2-1 [705 kB] Get:2048 http://deb.debian.org/debian stretch/main amd64 r-cran-praise all 1.0.0-1 [17.5 kB] Get:2049 http://deb.debian.org/debian stretch/main amd64 r-cran-testthat amd64 1.0.2-2 [415 kB] Get:2050 http://deb.debian.org/debian stretch/main amd64 r-bioc-ebseq all 1.14.0-1 [1025 kB] Get:2051 http://deb.debian.org/debian stretch/main amd64 r-bioc-limma amd64 3.30.8+dfsg-1 [1055 kB] Get:2052 http://deb.debian.org/debian stretch/main amd64 r-bioc-edger amd64 3.14.0+dfsg-1 [543 kB] Get:2053 http://deb.debian.org/debian stretch/main amd64 r-bioc-hilbertvis amd64 1.32.0-1 [972 kB] Get:2054 http://deb.debian.org/debian stretch/main amd64 r-bioc-mergeomics all 1.2.0-1 [2592 kB] Get:2055 http://deb.debian.org/debian stretch/main amd64 r-cran-glmnet amd64 2.0-5-1 [1583 kB] Get:2056 http://deb.debian.org/debian stretch/main amd64 r-bioc-metagenomeseq all 1.16.0-2 [1940 kB] Get:2057 http://deb.debian.org/debian stretch/main amd64 r-bioc-multtest amd64 2.30.0-1 [637 kB] Get:2058 http://deb.debian.org/debian stretch/main amd64 r-cran-ade4 amd64 1.7-5-1 [4022 kB] Get:2059 http://deb.debian.org/debian stretch/main amd64 r-cran-ape amd64 4.0-1 [1373 kB] Get:2060 http://deb.debian.org/debian stretch/main amd64 r-cran-registry all 0.3-1 [190 kB] Get:2061 http://deb.debian.org/debian stretch/main amd64 r-cran-pkgmaker amd64 0.22-1 [549 kB] Get:2062 http://deb.debian.org/debian stretch/main amd64 r-cran-rngtools amd64 1.2.4-2 [153 kB] Get:2063 http://deb.debian.org/debian stretch/main amd64 r-cran-gridbase all 0.4-7-2 [164 kB] Get:2064 http://deb.debian.org/debian stretch/main amd64 r-cran-doparallel amd64 1.0.10-3 [183 kB] Get:2065 http://deb.debian.org/debian stretch/main amd64 r-cran-nmf amd64 0.20.6-1 [2402 kB] Get:2066 http://deb.debian.org/debian stretch/main amd64 r-cran-irlba amd64 2.1.2-1 [241 kB] Get:2067 http://deb.debian.org/debian stretch/main amd64 r-cran-igraph amd64 1.0.1-1+deb9u1 [3118 kB] Get:2068 http://deb.debian.org/debian stretch/main amd64 r-cran-permute all 0.9-4-1 [493 kB] Get:2069 http://deb.debian.org/debian stretch/main amd64 r-cran-vegan amd64 2.4-2-1 [2605 kB] Get:2070 http://deb.debian.org/debian stretch/main amd64 r-bioc-phyloseq all 1.19.1-2 [3105 kB] Get:2071 http://deb.debian.org/debian stretch/main amd64 r-bioc-qvalue all 2.6.0-1 [2788 kB] Get:2072 http://deb.debian.org/debian stretch/main amd64 r-cran-segmented all 0.5-1.4-1 [154 kB] Get:2073 http://deb.debian.org/debian stretch/main amd64 r-cran-seqinr amd64 3.3-3-1 [3760 kB] Get:2074 http://deb.debian.org/debian stretch/main amd64 r-cran-dplyr amd64 0.5.0-1 [1340 kB] Get:2075 http://deb.debian.org/debian stretch/main amd64 r-cran-sp amd64 1:1.2-4-1 [1474 kB] Get:2076 http://deb.debian.org/debian stretch/main amd64 r-cran-learnbayes all 2.15-3 [1075 kB] Get:2077 http://deb.debian.org/debian stretch/main amd64 r-cran-deldir amd64 0.1-12-1 [138 kB] Get:2078 http://deb.debian.org/debian stretch/main amd64 r-cran-coda all 0.19-1-1 [205 kB] Get:2079 http://deb.debian.org/debian stretch/main amd64 r-cran-gmodels all 2.16.2-2 [80.0 kB] Get:2080 http://deb.debian.org/debian stretch/main amd64 r-cran-spdep amd64 0.6-9-1 [3572 kB] Get:2081 http://deb.debian.org/debian stretch/main amd64 r-cran-adegenet amd64 2.0.1-1 [2178 kB] Get:2082 http://deb.debian.org/debian stretch/main amd64 r-cran-adegraphics all 1.0-6-1 [2811 kB] Get:2083 http://deb.debian.org/debian stretch/main amd64 r-cran-prettyunits all 1.0.2-1 [26.4 kB] Get:2084 http://deb.debian.org/debian stretch/main amd64 r-cran-progress all 1.1.2-1 [41.0 kB] Get:2085 http://deb.debian.org/debian stretch/main amd64 r-cran-rncl amd64 0.8.2-1 [413 kB] Get:2086 http://deb.debian.org/debian stretch/main amd64 r-cran-xml2 amd64 1.1.0-1 [257 kB] Get:2087 http://deb.debian.org/debian stretch/main amd64 r-cran-reshape all 0.8.6-1 [124 kB] Get:2088 http://deb.debian.org/debian stretch/main amd64 r-cran-bold all 0.4.0-1 [63.3 kB] Get:2089 http://deb.debian.org/debian stretch/main amd64 r-cran-rredlist all 0.2.0-1 [54.1 kB] Get:2090 http://deb.debian.org/debian stretch/main amd64 r-cran-rentrez all 1.0.4-1 [96.4 kB] Get:2091 http://deb.debian.org/debian stretch/main amd64 r-cran-rotl all 3.0.1-1 [238 kB] Get:2092 http://deb.debian.org/debian stretch/main amd64 r-cran-solrium all 0.4.0-1 [268 kB] Get:2093 http://deb.debian.org/debian stretch/main amd64 r-cran-ritis all 0.5.4-1 [114 kB] Get:2094 http://deb.debian.org/debian stretch/main amd64 r-cran-taxize all 0.8.0-1 [668 kB] Get:2095 http://deb.debian.org/debian stretch/main amd64 r-cran-uuid amd64 0.1.2-8 [15.3 kB] Get:2096 http://deb.debian.org/debian stretch/main amd64 r-cran-tidyr amd64 0.6.1-1 [337 kB] Get:2097 http://deb.debian.org/debian stretch/main amd64 r-cran-rnexml all 2.0.7-1 [337 kB] Get:2098 http://deb.debian.org/debian stretch/main amd64 r-cran-phylobase amd64 0.8.2-1 [645 kB] Get:2099 http://deb.debian.org/debian stretch/main amd64 r-cran-adephylo amd64 1.1-10-2 [483 kB] Get:2100 http://deb.debian.org/debian stretch/main amd64 r-cran-numderiv all 2016.8-1-1 [111 kB] Get:2101 http://deb.debian.org/debian stretch/main amd64 r-cran-bbmle all 1.0.18-2 [607 kB] Get:2102 http://deb.debian.org/debian stretch/main amd64 r-cran-beeswarm all 0.2.3-1 [49.0 kB] Get:2103 http://deb.debian.org/debian stretch/main amd64 r-cran-bio3d amd64 2.3-1-1 [2162 kB] Get:2104 http://deb.debian.org/debian stretch/main amd64 r-cran-combinat all 0.0-8-4 [29.7 kB] Get:2105 http://deb.debian.org/debian stretch/main amd64 r-cran-distory amd64 1.4.2-1 [81.4 kB] Get:2106 http://deb.debian.org/debian stretch/main amd64 r-cran-ellipse all 0.3-8-1 [48.1 kB] Get:2107 http://deb.debian.org/debian stretch/main amd64 r-cran-fastmatch amd64 1.0-4-1 [17.3 kB] Get:2108 http://deb.debian.org/debian stretch/main amd64 r-cran-spam amd64 1.4-0-1 [1829 kB] Get:2109 http://deb.debian.org/debian stretch/main amd64 r-cran-maps amd64 3.1.1-1 [2163 kB] Get:2110 http://deb.debian.org/debian stretch/main amd64 r-cran-fields amd64 8.10-1 [3602 kB] Get:2111 http://deb.debian.org/debian stretch/main amd64 r-cran-globals amd64 0.8.0-1 [52.3 kB] Get:2112 http://deb.debian.org/debian stretch/main amd64 r-cran-listenv amd64 0.6.0-1 [56.3 kB] Get:2113 http://deb.debian.org/debian stretch/main amd64 r-cran-future all 1.2.0-1 [234 kB] Get:2114 http://deb.debian.org/debian stretch/main amd64 r-cran-g.data all 2.4-1 [86.1 kB] Get:2115 http://deb.debian.org/debian stretch/main amd64 r-cran-genabel.data amd64 1.0.0-1 [2423 kB] Get:2116 http://deb.debian.org/debian stretch/main amd64 r-cran-genabel amd64 1.8-0-1+b1 [2876 kB] Get:2117 http://deb.debian.org/debian stretch/main amd64 r-cran-mvtnorm amd64 1.0-5-2 [180 kB] Get:2118 http://deb.debian.org/debian stretch/main amd64 r-cran-genetics all 1.3.8.1-1 [285 kB] Get:2119 http://deb.debian.org/debian stretch/main amd64 r-cran-googlevis all 0.6.2-1 [1539 kB] Get:2120 http://deb.debian.org/debian stretch/main amd64 r-cran-sparsem amd64 1.74-1 [758 kB] Get:2121 http://deb.debian.org/debian stretch/main amd64 r-cran-matrixmodels all 0.4-1-1 [224 kB] Get:2122 http://deb.debian.org/debian stretch/main amd64 r-cran-quantreg amd64 5.29-1 [1782 kB] Get:2123 http://deb.debian.org/debian stretch/main amd64 r-cran-polspline amd64 1.1.12-2 [408 kB] Get:2124 http://deb.debian.org/debian stretch/main amd64 r-cran-zoo amd64 1.7-14-1 [873 kB] Get:2125 http://deb.debian.org/debian stretch/main amd64 r-cran-sandwich all 2.3-4-2 [497 kB] Get:2126 http://deb.debian.org/debian stretch/main amd64 r-cran-th.data amd64 1.0-7-2 [5195 kB] Get:2127 http://deb.debian.org/debian stretch/main amd64 r-cran-multcomp all 1.4-6-1 [593 kB] Get:2128 http://deb.debian.org/debian stretch/main amd64 r-cran-rms amd64 5.1-0-1 [1162 kB] Get:2129 http://deb.debian.org/debian stretch/main amd64 r-cran-haplo.stats amd64 1.7.7-1 [1133 kB] Get:2130 http://deb.debian.org/debian stretch/main amd64 r-cran-htmlwidgets amd64 0.8-1 [381 kB] Get:2131 http://deb.debian.org/debian stretch/main amd64 r-cran-minpack.lm amd64 1.2-1-1 [68.8 kB] Get:2132 http://deb.debian.org/debian stretch/main amd64 r-cran-raster amd64 2.5-8-1 [2571 kB] Get:2133 http://deb.debian.org/debian stretch/main amd64 r-cran-readxl amd64 0.1.1-1+deb9u2 [198 kB] Get:2134 http://deb.debian.org/debian stretch/main amd64 r-cran-shape all 1.4.2-1 [739 kB] Get:2135 http://deb.debian.org/debian stretch/main amd64 r-cran-luminescence amd64 0.6.4-1 [1686 kB] Get:2136 http://deb.debian.org/debian stretch/main amd64 r-cran-multicore amd64 0.2-1 [19.2 kB] Get:2137 http://deb.debian.org/debian stretch/main amd64 r-cran-optparse all 1.3.2-1 [60.0 kB] Get:2138 http://deb.debian.org/debian stretch/main amd64 r-cran-quadprog amd64 1.5-5-2 [31.2 kB] Get:2139 http://deb.debian.org/debian stretch/main amd64 r-cran-phangorn amd64 2.1.1-1 [2086 kB] Get:2140 http://deb.debian.org/debian stretch/main amd64 r-cran-r.methodss3 amd64 1.7.1-1 [59.9 kB] Get:2141 http://deb.debian.org/debian stretch/main amd64 r-cran-r.oo amd64 1.21.0-1 [763 kB] Get:2142 http://deb.debian.org/debian stretch/main amd64 r-cran-r.utils amd64 2.5.0-1 [966 kB] Get:2143 http://deb.debian.org/debian stretch/main amd64 r-cran-r.cache amd64 0.12.0-2 [77.0 kB] Get:2144 http://deb.debian.org/debian stretch/main amd64 r-cran-pscbs amd64 0.62.0-1 [3582 kB] Get:2145 http://deb.debian.org/debian stretch/main amd64 r-cran-pvclust all 2.0-0-1 [147 kB] Get:2146 http://deb.debian.org/debian stretch/main amd64 r-cran-qtl amd64 1.40-8-1 [4201 kB] Get:2147 http://deb.debian.org/debian stretch/main amd64 r-cran-randomforest amd64 4.6-12-1 [141 kB] Get:2148 http://deb.debian.org/debian stretch/main amd64 r-cran-rgl amd64 0.96.0-1 [2112 kB] Get:2149 http://deb.debian.org/debian stretch/main amd64 r-cran-rlumshiny amd64 0.1.1-1 [222 kB] Get:2150 http://deb.debian.org/debian stretch/main amd64 r-cran-scatterd3 all 0.8.1+dfsg-1 [167 kB] Get:2151 http://deb.debian.org/debian stretch/main amd64 r-cran-shinybs all 0.61-1 [88.8 kB] Get:2152 http://deb.debian.org/debian stretch/main amd64 r-cran-treescape amd64 1.10.18-6 [1955 kB] Get:2153 http://deb.debian.org/debian stretch/main amd64 r-doc-html all 3.3.3-1 [551 kB] Get:2154 http://deb.debian.org/debian stretch/main amd64 r-other-mott-happy.hbrem amd64 2.4-1 [145 kB] Get:2155 http://deb.debian.org/debian stretch/main amd64 rubygems-integration all 1.11 [4994 B] Get:2156 http://deb.debian.org/debian stretch/main amd64 ruby-did-you-mean all 1.0.0-2 [11.2 kB] Get:2157 http://deb.debian.org/debian stretch/main amd64 ruby-minitest all 5.9.0-1 [51.1 kB] Get:2158 http://deb.debian.org/debian stretch/main amd64 ruby-net-telnet all 0.1.1-2 [12.5 kB] Get:2159 http://deb.debian.org/debian stretch/main amd64 ruby-power-assert all 0.3.0-1 [7902 B] Get:2160 http://deb.debian.org/debian stretch/main amd64 ruby-test-unit all 3.1.7-2 [69.6 kB] Get:2161 http://deb.debian.org/debian stretch/main amd64 libruby2.3 amd64 2.3.3-1+deb9u8 [3108 kB] Get:2162 http://deb.debian.org/debian stretch/main amd64 ruby2.3 amd64 2.3.3-1+deb9u8 [189 kB] Get:2163 http://deb.debian.org/debian stretch/main amd64 ruby amd64 1:2.3.3 [10.8 kB] Get:2164 http://deb.debian.org/debian stretch/main amd64 rake all 10.5.0-2+deb9u1 [49.7 kB] Get:2165 http://deb.debian.org/debian stretch/main amd64 rambo-k all 1.21+dfsg-1 [1167 kB] Get:2166 http://deb.debian.org/debian stretch/main amd64 rapmap amd64 0.4.0+dfsg-2 [785 kB] Get:2167 http://deb.debian.org/debian stretch/main amd64 libcbf0 amd64 0.9.2.2-1+b1 [147 kB] Get:2168 http://deb.debian.org/debian stretch/main amd64 libcvector2 amd64 1.0.3.1-1.1+b2 [6058 B] Get:2169 http://deb.debian.org/debian stretch/main amd64 libcneartree5 amd64 3.1.1-2.1+b2 [24.0 kB] Get:2170 http://deb.debian.org/debian stretch/main amd64 libcqrlib2 amd64 1.1.2-2.1+b2 [13.9 kB] Get:2171 http://deb.debian.org/debian stretch/main amd64 rasmol amd64 2.7.5.2-2 [1688 kB] Get:2172 http://deb.debian.org/debian stretch/main amd64 raster3d amd64 3.0-3-2+b1 [168 kB] Get:2173 http://deb.debian.org/debian stretch/main amd64 rdp-readseq all 2.0.2-2 [446 kB] Get:2174 http://deb.debian.org/debian stretch/main amd64 rdp-alignment all 1.2.0-2 [77.5 kB] Get:2175 http://deb.debian.org/debian stretch/main amd64 rdp-classifier all 2.10.2-1 [220 kB] Get:2176 http://deb.debian.org/debian stretch/main amd64 rdp-classifier-doc all 2.10.2-1 [259 kB] Get:2177 http://deb.debian.org/debian stretch/main amd64 readseq amd64 1-11+b1 [56.1 kB] Get:2178 http://deb.debian.org/debian stretch/main amd64 snpomatic amd64 1.0-3+b1 [82.0 kB] Get:2179 http://deb.debian.org/debian stretch/main amd64 tabix amd64 1.3.2-2 [257 kB] Get:2180 http://deb.debian.org/debian stretch/main amd64 reapr amd64 1.0.18+dfsg-3 [226 kB] Get:2181 http://deb.debian.org/debian stretch/main amd64 rename all 0.20-4 [12.5 kB] Get:2182 http://deb.debian.org/debian stretch/main amd64 repeatmasker-recon amd64 1.08-3+b1 [101 kB] Get:2183 http://deb.debian.org/debian stretch/main amd64 rhino all 1.7.7.1-1 [26.6 kB] Get:2184 http://deb.debian.org/debian stretch/main amd64 rna-star amd64 2.5.2b+dfsg-1 [366 kB] Get:2185 http://deb.debian.org/debian stretch/main amd64 rnahybrid amd64 2.1.2-1+b1 [159 kB] Get:2186 http://deb.debian.org/debian stretch/main amd64 roary all 3.8.0+dfsg-1 [170 kB] Get:2187 http://deb.debian.org/debian stretch/main amd64 rsem amd64 1.2.31+dfsg-1 [765 kB] Get:2188 http://deb.debian.org/debian stretch/main amd64 rtax all 0.984-5 [26.1 kB] Get:2189 http://deb.debian.org/debian stretch/main amd64 ruby-bio all 1.5.0-2 [701 kB] Get:2190 http://deb.debian.org/debian stretch/main amd64 ruby-facade all 1.0.7-1 [7868 B] Get:2191 http://deb.debian.org/debian stretch/main amd64 ruby-pathname2 all 1.8.0-1 [17.0 kB] Get:2192 http://deb.debian.org/debian stretch/main amd64 ruby-fixwhich all 1.0.2-1 [4014 B] Get:2193 http://deb.debian.org/debian stretch/main amd64 ruby-threach all 0.2.0-1 [5020 B] Get:2194 http://deb.debian.org/debian stretch/main amd64 ruby-trollop all 2.0-2 [16.8 kB] Get:2195 http://deb.debian.org/debian stretch/main amd64 ruby-crb-blast all 0.6.8-1 [11.4 kB] Get:2196 http://deb.debian.org/debian stretch/main amd64 saint amd64 2.5.0+dfsg-2+b1 [88.5 kB] Get:2197 http://deb.debian.org/debian stretch/main amd64 libjs-modernizr all 2.6.2+ds1-1 [71.3 kB] Get:2198 http://deb.debian.org/debian stretch/main amd64 sphinx-rtd-theme-common all 0.1.9-1 [210 kB] Get:2199 http://deb.debian.org/debian stretch/main amd64 salmon amd64 0.7.2+ds1-2+b1 [1622 kB] Get:2200 http://deb.debian.org/debian stretch/main amd64 sbmltoolbox all 4.1.0-3 [212 kB] Get:2201 http://deb.debian.org/debian stretch/main amd64 scrm amd64 1.7.2-1+b1 [62.3 kB] Get:2202 http://deb.debian.org/debian stretch/main amd64 scythe amd64 0.994-4 [18.2 kB] Get:2203 http://deb.debian.org/debian stretch/main amd64 seaview amd64 1:4.6.1.2-2 [339 kB] Get:2204 http://deb.debian.org/debian stretch/main amd64 seer amd64 1.1.2-3 [398 kB] Get:2205 http://deb.debian.org/debian stretch/main amd64 seqan-dev all 1.4.2+dfsg-2 [1098 kB] Get:2206 http://deb.debian.org/debian stretch/main amd64 seqprep amd64 1.3.2-1 [27.8 kB] Get:2207 http://deb.debian.org/debian stretch/main amd64 sga amd64 0.10.15-2 [1008 kB] Get:2208 http://deb.debian.org/debian stretch/main amd64 sibsim4 amd64 0.20-2+b1 [30.3 kB] Get:2209 http://deb.debian.org/debian stretch/main amd64 sickle amd64 1.33-1+b1 [18.2 kB] Get:2210 http://deb.debian.org/debian stretch/main amd64 sigma-align amd64 1.1.3-4+b1 [24.3 kB] Get:2211 http://deb.debian.org/debian stretch/main amd64 sim4 amd64 0.0.20121010-4 [396 kB] Get:2212 http://deb.debian.org/debian stretch/main amd64 smithwaterman amd64 0.0+20160702-1+b1 [9036 B] Get:2213 http://deb.debian.org/debian stretch/main amd64 smrtanalysis all 0~20161126 [2518 B] Get:2214 http://deb.debian.org/debian stretch/main amd64 snap-aligner amd64 1.0~beta.18+dfsg-1 [1617 kB] Get:2215 http://deb.debian.org/debian stretch/main amd64 sniffles amd64 1.0.2+ds-1 [146 kB] Get:2216 http://deb.debian.org/debian stretch/main amd64 snp-sites amd64 2.3.2-1 [10.3 kB] Get:2217 http://deb.debian.org/debian stretch/main amd64 soapdenovo amd64 1.05-3 [343 kB] Get:2218 http://deb.debian.org/debian stretch/main amd64 soapdenovo2 amd64 240+dfsg1-2 [450 kB] Get:2219 http://deb.debian.org/debian stretch/main amd64 sortmerna amd64 2.1-1+b1 [537 kB] Get:2220 http://deb.debian.org/debian stretch/main amd64 spaced amd64 1.0.2+dfsg-1+b1 [49.3 kB] Get:2221 http://deb.debian.org/debian stretch/main amd64 sprai amd64 0.9.9.22+dfsg-1 [1513 kB] Get:2222 http://deb.debian.org/debian stretch/main amd64 spread-phy all 1.0.7+dfsg-1 [3313 kB] Get:2223 http://deb.debian.org/debian stretch/main amd64 squizz amd64 0.99c+dfsg-1 [31.2 kB] Get:2224 http://deb.debian.org/debian stretch/main amd64 sra-toolkit amd64 2.8.1-2+dfsg-2 [1487 kB] Get:2225 http://deb.debian.org/debian stretch/main amd64 srst2 amd64 0.2.0-4 [60.5 kB] Get:2226 http://deb.debian.org/debian stretch/main amd64 ssake all 3.8.4-1 [30.1 kB] Get:2227 http://deb.debian.org/debian stretch/main amd64 ssl-cert all 1.0.39 [20.8 kB] Get:2228 http://deb.debian.org/debian stretch/main amd64 sspace all 2.1.1+dfsg-2 [1339 kB] Get:2229 http://deb.debian.org/debian stretch/main amd64 ssw-align amd64 1.1-1+b1 [12.8 kB] Get:2230 http://deb.debian.org/debian stretch/main amd64 stacks amd64 1.44-2+b1 [1031 kB] Get:2231 http://deb.debian.org/debian stretch/main amd64 tk8.6 amd64 8.6.6-1+b1 [71.8 kB] Get:2232 http://deb.debian.org/debian stretch/main amd64 tcl8.6 amd64 8.6.6+dfsg-1+b1 [123 kB] Get:2233 http://deb.debian.org/debian stretch/main amd64 tcl amd64 8.6.0+9 [5468 B] Get:2234 http://deb.debian.org/debian stretch/main amd64 tk amd64 8.6.0+9 [5506 B] Get:2235 http://deb.debian.org/debian stretch/main amd64 staden-common all 2.0.0+b11-2 [1973 kB] Get:2236 http://deb.debian.org/debian stretch/main amd64 staden-io-lib-utils amd64 1.14.8-2 [250 kB] Get:2237 http://deb.debian.org/debian stretch/main amd64 tklib all 0.6-3 [1022 kB] Get:2238 http://deb.debian.org/debian stretch/main amd64 staden amd64 2.0.0+b11-2+b1 [1614 kB] Get:2239 http://deb.debian.org/debian stretch/main amd64 subread amd64 1.5.1+dfsg-4 [570 kB] Get:2240 http://deb.debian.org/debian stretch/main amd64 suitename amd64 0.3.070628-1+b1 [21.3 kB] Get:2241 http://deb.debian.org/debian stretch/main amd64 sumaclust amd64 1.0.20-1+b1 [114 kB] Get:2242 http://deb.debian.org/debian stretch/main amd64 sumatra amd64 1.0.20-1+b1 [98.8 kB] Get:2243 http://deb.debian.org/debian stretch/main amd64 sumtrees all 4.2.0+dfsg-1 [27.3 kB] Get:2244 http://deb.debian.org/debian stretch/main amd64 surankco all 0.0.r5+dfsg-1 [76.7 kB] Get:2245 http://deb.debian.org/debian stretch/main amd64 swarm amd64 2.1.12+dfsg-1 [72.1 kB] Get:2246 http://deb.debian.org/debian stretch/main amd64 t-coffee amd64 11.00.8cbe486-5 [1918 kB] Get:2247 http://deb.debian.org/debian stretch/main amd64 tantan amd64 13-4 [36.1 kB] Get:2248 http://deb.debian.org/debian stretch/main amd64 tcllib all 1.18-dfsg-3 [4149 kB] Get:2249 http://deb.debian.org/debian stretch/main amd64 tcpd amd64 7.6.q-26 [23.3 kB] Get:2250 http://deb.debian.org/debian stretch/main amd64 tex-gyre all 20160520-1 [5000 kB] Get:2251 http://deb.debian.org/debian stretch/main amd64 texlive-extra-utils all 2016.20170123-5 [19.8 MB] Get:2252 http://deb.debian.org/debian stretch/main amd64 texlive-font-utils all 2016.20170123-5 [1736 kB] Get:2253 http://deb.debian.org/debian stretch/main amd64 fonts-stix all 1.1.1-4 [590 kB] Get:2254 http://deb.debian.org/debian stretch/main amd64 ttf-adf-accanthis all 0.20090423-2 [401 kB] Get:2255 http://deb.debian.org/debian stretch/main amd64 ttf-adf-gillius all 0.20090423-2 [400 kB] Get:2256 http://deb.debian.org/debian stretch/main amd64 ttf-adf-universalis all 0.20090423-2 [221 kB] Get:2257 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-extra all 2016.20170123-5 [256 MB] Get:2258 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-extra-doc all 2016.20170123-5 [82.5 MB] Get:2259 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-recommended all 2016.20170123-5 [5307 kB] Get:2260 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-recommended-doc all 2016.20170123-5 [2660 kB] Get:2261 http://deb.debian.org/debian stretch/main amd64 texlive-generic-extra all 2016.20170123-5 [14.9 MB] Get:2262 http://deb.debian.org/debian stretch/main amd64 texlive-latex-base-doc all 2016.20170123-5 [45.6 MB] Get:2263 http://deb.debian.org/debian stretch/main amd64 texlive-latex-extra all 2016.20170123-5 [10.6 MB] Get:2264 http://deb.debian.org/debian stretch/main amd64 texlive-latex-extra-doc all 2016.20170123-5 [364 MB] Get:2265 http://deb.debian.org/debian stretch/main amd64 texlive-latex-recommended-doc all 2016.20170123-5 [40.6 MB] Get:2266 http://deb.debian.org/debian stretch/main amd64 texlive-pictures-doc all 2016.20170123-5 [105 MB] Get:2267 http://deb.debian.org/debian stretch/main amd64 texlive-pstricks-doc all 2016.20170123-5 [238 MB] Get:2268 http://deb.debian.org/debian stretch/main amd64 texlive-science all 2016.20170123-5 [3043 kB] Get:2269 http://deb.debian.org/debian stretch/main amd64 texlive-science-doc all 2016.20170123-5 [46.3 MB] Get:2270 http://deb.debian.org/debian stretch/main amd64 theseus amd64 3.3.0-5+b1 [432 kB] Get:2271 http://deb.debian.org/debian stretch/main amd64 tigr-glimmer amd64 3.02b-1 [283 kB] Get:2272 http://deb.debian.org/debian stretch/main amd64 tipa all 2:1.3-20 [2972 kB] Get:2273 http://deb.debian.org/debian stretch/main amd64 tm-align amd64 20160521+dfsg-2 [868 kB] Get:2274 http://deb.debian.org/debian stretch/main amd64 toppred amd64 1.10-4 [61.9 kB] Get:2275 http://deb.debian.org/debian stretch/main amd64 transdecoder all 3.0.1+dfsg-1 [62.8 kB] Get:2276 http://deb.debian.org/debian stretch/main amd64 transrate-tools amd64 1.0.0-1+b1 [16.6 kB] Get:2277 http://deb.debian.org/debian stretch/main amd64 transtermhp amd64 2.09-3+b1 [131 kB] Get:2278 http://deb.debian.org/debian stretch/main amd64 tree-puzzle amd64 5.2-8+b3 [135 kB] Get:2279 http://deb.debian.org/debian stretch/main amd64 tree-puzzle-doc all 5.2-8 [401 kB] Get:2280 http://deb.debian.org/debian stretch/main amd64 treeview all 1.1.6.4+dfsg1-2 [2720 kB] Get:2281 http://deb.debian.org/debian stretch/main amd64 treeviewx amd64 0.5.1+20100823-4 [182 kB] Get:2282 http://deb.debian.org/debian stretch/main amd64 trimmomatic all 0.36+dfsg-1 [116 kB] Get:2283 http://deb.debian.org/debian stretch/main amd64 trinityrnaseq amd64 2.2.0+dfsg-2+b1 [1748 kB] Get:2284 http://deb.debian.org/debian stretch/main amd64 trinityrnaseq-examples all 2.2.0+dfsg-2 [154 MB] Get:2285 http://deb.debian.org/debian stretch/main amd64 uc-echo amd64 1.12-9+b1 [76.7 kB] Get:2286 http://deb.debian.org/debian stretch/main amd64 varna all 3-93+ds-1 [761 kB] Get:2287 http://deb.debian.org/debian stretch/main amd64 velvet amd64 1.2.10+dfsg1-3+b1 [688 kB] Get:2288 http://deb.debian.org/debian stretch/main amd64 velvetoptimiser all 2.2.5-5 [25.1 kB] Get:2289 http://deb.debian.org/debian stretch/main amd64 vsearch amd64 2.3.4-1 [257 kB] Get:2290 http://deb.debian.org/debian stretch/main amd64 wise-data all 2.4.1-19 [108 kB] Get:2291 http://deb.debian.org/debian stretch/main amd64 wise amd64 2.4.1-19 [993 kB] Get:2292 http://deb.debian.org/debian stretch/main amd64 x11-xserver-utils amd64 7.7+7+b1 [167 kB] Get:2293 http://deb.debian.org/debian stretch/main amd64 xbitmaps all 1.1.1-2 [32.1 kB] Get:2294 http://deb.debian.org/debian stretch/main amd64 xdg-user-dirs amd64 0.15-2+b1 [52.2 kB] Get:2295 http://deb.debian.org/debian stretch/main amd64 xfonts-encodings all 1:1.0.4-2 [574 kB] Get:2296 http://deb.debian.org/debian stretch/main amd64 xfonts-utils amd64 1:7.7+4 [77.2 kB] Get:2297 http://deb.debian.org/debian stretch/main amd64 xfonts-100dpi all 1:1.0.4+nmu1 [3822 kB] Get:2298 http://deb.debian.org/debian stretch/main amd64 xsltproc amd64 1.1.29-2.1+deb9u2 [120 kB] Get:2299 http://deb.debian.org/debian stretch/main amd64 xterm amd64 327-2 [663 kB] Get:2300 http://deb.debian.org/debian stretch/main amd64 zalign amd64 0.9.1-2+b3 [48.6 kB] Get:2301 http://deb.debian.org/debian stretch/main amd64 acedb-other amd64 4.9.39+dfsg.02-1 [16.8 kB] Get:2302 http://deb.debian.org/debian stretch/main amd64 acedb-other-belvu amd64 4.9.39+dfsg.02-1 [188 kB] Get:2303 http://deb.debian.org/debian stretch/main amd64 acedb-other-dotter amd64 4.9.39+dfsg.02-1 [208 kB] Get:2304 http://deb.debian.org/debian stretch/main amd64 ampliconnoise amd64 1.29-6 [476 kB] Get:2305 http://deb.debian.org/debian stretch/main amd64 autodock-vina amd64 1.1.2-3+b6 [175 kB] Get:2306 http://deb.debian.org/debian stretch/main amd64 concavity amd64 0.1+dfsg.1-1 [295 kB] Get:2307 http://deb.debian.org/debian stretch/main amd64 conservation-code all 20110309.0-5 [23.6 kB] Get:2308 http://deb.debian.org/debian stretch/main amd64 datamash amd64 1.0.7-1 [744 kB] Get:2309 http://deb.debian.org/debian stretch/main amd64 disulfinder-data all 1.2.11-6 [1129 kB] Get:2310 http://deb.debian.org/debian stretch/main amd64 disulfinder amd64 1.2.11-6 [261 kB] Get:2311 http://deb.debian.org/debian stretch/main amd64 edtsurf amd64 0.2009-4+b1 [59.1 kB] Get:2312 http://deb.debian.org/debian stretch/main amd64 fabio-viewer all 0.4.0+dfsg-2 [15.8 kB] Get:2313 http://deb.debian.org/debian stretch/main amd64 libffindex0 amd64 0.9.9.7-3 [16.7 kB] Get:2314 http://deb.debian.org/debian stretch/main amd64 ffindex amd64 0.9.9.7-3 [29.6 kB] Get:2315 http://deb.debian.org/debian stretch/main amd64 freecontact amd64 1.0.21-5 [335 kB] Get:2316 http://deb.debian.org/debian stretch/main amd64 gnupg-l10n all 2.1.18-8~deb9u4 [893 kB] Get:2317 http://deb.debian.org/debian stretch/main amd64 gromacs-data all 2016.1-2 [22.1 MB] Get:2318 http://deb.debian.org/debian stretch/main amd64 libgromacs2 amd64 2016.1-2 [11.3 MB] Get:2319 http://deb.debian.org/debian stretch/main amd64 gromacs amd64 2016.1-2 [234 kB] Get:2320 http://deb.debian.org/debian stretch/main amd64 hhsuite-data all 3.0~beta2+dfsg-3 [2164 kB] Get:2321 http://deb.debian.org/debian stretch/main amd64 hhsuite amd64 3.0~beta2+dfsg-3 [1005 kB] Get:2322 http://deb.debian.org/debian stretch/main amd64 libconfig-inifiles-perl all 2.94-1 [53.4 kB] Get:2323 http://deb.debian.org/debian stretch/main amd64 libev-perl amd64 4.22-1+b1 [240 kB] Get:2324 http://deb.debian.org/debian stretch/main amd64 libffindex0-dev amd64 0.9.9.7-3 [17.6 kB] Get:2325 http://deb.debian.org/debian stretch/main amd64 libfreecontact-perl amd64 0.08-5+b1 [73.7 kB] Get:2326 http://deb.debian.org/debian stretch/main amd64 libgenometools0-dev amd64 1.5.9+ds-4 [78.4 kB] Get:2327 http://deb.debian.org/debian stretch/main amd64 libhmsbeagle-dev amd64 2.1.2+20160831-5 [166 kB] Get:2328 http://deb.debian.org/debian stretch/main amd64 librg-blast-parser-perl amd64 0.03-4+b1 [39.5 kB] Get:2329 http://deb.debian.org/debian stretch/main amd64 librg-reprof-bundle-perl all 1.0.1-4 [7479 kB] Get:2330 http://deb.debian.org/debian stretch/main amd64 profphd-utils amd64 1.0.10-3+b1 [264 kB] Get:2331 http://deb.debian.org/debian stretch/main amd64 librg-utils-perl all 1.0.43-4 [111 kB] Get:2332 http://deb.debian.org/debian stretch/main amd64 libset-scalar-perl all 1.29-2 [31.4 kB] Get:2333 http://deb.debian.org/debian stretch/main amd64 libtxc-dxtn-s2tc amd64 1.0+git20151227-2 [48.4 kB] Get:2334 http://deb.debian.org/debian stretch/main amd64 libzerg0 amd64 1.0.7-8 [21.2 kB] Get:2335 http://deb.debian.org/debian stretch/main amd64 libzerg-perl amd64 1.0.4-5+b1 [19.5 kB] Get:2336 http://deb.debian.org/debian stretch/main amd64 libzerg0-dev amd64 1.0.7-8 [23.4 kB] Get:2337 http://deb.debian.org/debian stretch/main amd64 lynx amd64 2.8.9dev11-1 [632 kB] Get:2338 http://deb.debian.org/debian stretch/main amd64 med-all all 3.0.1 [12.6 kB] Get:2339 http://deb.debian.org/debian stretch/main amd64 med-tasks all 3.0.1 [14.3 kB] Get:2340 http://deb.debian.org/debian stretch/main amd64 med-config all 3.0.1 [17.1 kB] Get:2341 http://deb.debian.org/debian stretch/main amd64 med-bio all 3.0.1 [18.7 kB] Get:2342 http://deb.debian.org/debian stretch/main amd64 med-bio-dev all 3.0.1 [16.3 kB] Get:2343 http://deb.debian.org/debian stretch/main amd64 med-statistics all 3.0.1 [14.7 kB] Get:2344 http://deb.debian.org/debian stretch/main amd64 ncbi-seg amd64 0.0.20000620-3+b1 [78.7 kB] Get:2345 http://deb.debian.org/debian stretch/main amd64 neobio all 0.0.20030929-2 [291 kB] Get:2346 http://deb.debian.org/debian stretch/main amd64 profnet-norsnet amd64 1.0.22-4 [43.0 kB] Get:2347 http://deb.debian.org/debian stretch/main amd64 norsnet all 1.0.17-2 [44.4 kB] Get:2348 http://deb.debian.org/debian stretch/main amd64 norsp all 1.0.6-2 [283 kB] Get:2349 http://deb.debian.org/debian stretch/main amd64 populations amd64 1.2.33+svn0120106-2.1+b1 [186 kB] Get:2350 http://deb.debian.org/debian stretch/main amd64 pp-popularity-contest amd64 1.0.6-2+b4 [33.3 kB] Get:2351 http://deb.debian.org/debian stretch/main amd64 predictnls all 1.0.20-3 [1404 kB] Get:2352 http://deb.debian.org/debian stretch/main amd64 profnet-bval amd64 1.0.22-4 [43.8 kB] Get:2353 http://deb.debian.org/debian stretch/main amd64 profbval all 1.0.22-4 [60.5 kB] Get:2354 http://deb.debian.org/debian stretch/main amd64 profnet-isis amd64 1.0.22-4 [105 kB] Get:2355 http://deb.debian.org/debian stretch/main amd64 profisis all 1.0.11-3 [63.2 kB] Get:2356 http://deb.debian.org/debian stretch/main amd64 profnet-chop amd64 1.0.22-4 [105 kB] Get:2357 http://deb.debian.org/debian stretch/main amd64 profnet-con amd64 1.0.22-4 [105 kB] Get:2358 http://deb.debian.org/debian stretch/main amd64 profnet-md amd64 1.0.22-4 [43.0 kB] Get:2359 http://deb.debian.org/debian stretch/main amd64 profnet-prof amd64 1.0.22-4 [105 kB] Get:2360 http://deb.debian.org/debian stretch/main amd64 profnet-snapfun amd64 1.0.22-4 [105 kB] Get:2361 http://deb.debian.org/debian stretch/main amd64 profphd-net amd64 1.0.22-4 [141 kB] Get:2362 http://deb.debian.org/debian stretch/main amd64 proftmb amd64 1.1.12-6+b1 [396 kB] Get:2363 http://deb.debian.org/debian stretch/main amd64 publicsuffix all 20190415.1030-0+deb9u1 [108 kB] Get:2364 http://deb.debian.org/debian stretch/main amd64 pvm amd64 3.4.6-1+b2 [167 kB] Get:2365 http://deb.debian.org/debian stretch/main amd64 python-pyfai amd64 0.13.0+dfsg-1 [1621 kB] Get:2366 http://deb.debian.org/debian stretch/main amd64 pyfai all 0.13.0+dfsg-1 [35.6 kB] Get:2367 http://deb.debian.org/debian stretch/main amd64 pynast all 1.2.2-2 [83.5 kB] Get:2368 http://deb.debian.org/debian stretch/main amd64 python-cogent amd64 1.9-9 [1063 kB] Get:2369 http://deb.debian.org/debian stretch/main amd64 python-corepywrap amd64 1.005-4+b3 [197 kB] Get:2370 http://deb.debian.org/debian stretch/main amd64 python-freecontact amd64 1.1-2+b2 [79.5 kB] Get:2371 http://deb.debian.org/debian stretch/main amd64 python-mako-doc all 1.0.6+ds1-2 [184 kB] Get:2372 http://deb.debian.org/debian stretch/main amd64 python-mpi4py amd64 2.0.0-2.1+deb9u1 [425 kB] Get:2373 http://deb.debian.org/debian stretch/main amd64 python-statsmodels-lib amd64 0.8.0~rc1+git59-gef47cd9-5 [291 kB] Get:2374 http://deb.debian.org/debian stretch/main amd64 python-statsmodels all 0.8.0~rc1+git59-gef47cd9-5 [3312 kB] Get:2375 http://deb.debian.org/debian stretch/main amd64 r-base-html all 3.3.3-1 [85.9 kB] Get:2376 http://deb.debian.org/debian stretch/main amd64 rate4site amd64 3.0.0-4+b1 [648 kB] Get:2377 http://deb.debian.org/debian stretch/main amd64 ray amd64 2.3.1-4+b1 [594 kB] Get:2378 http://deb.debian.org/debian stretch/main amd64 reprof all 1.0.1-4 [17.8 kB] Get:2379 http://deb.debian.org/debian stretch/main amd64 snap amd64 2013-11-29-6 [373 kB] Get:2380 http://deb.debian.org/debian stretch/main amd64 vcftools amd64 0.1.14+dfsg-4+deb9u1 [458 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 3733 MB in 7min 55s (7845 kB/s) Selecting previously unselected package install-info. (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 ... 4411 files and directories currently installed.) Preparing to unpack .../install-info_6.3.0.dfsg.1-1+b2_amd64.deb ... Unpacking install-info (6.3.0.dfsg.1-1+b2) ... Setting up install-info (6.3.0.dfsg.1-1+b2) ... Selecting previously unselected package lsb-base. (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 ... 4426 files and directories currently installed.) Preparing to unpack .../00-lsb-base_9.20161125_all.deb ... Unpacking lsb-base (9.20161125) ... Selecting previously unselected package cron. Preparing to unpack .../01-cron_3.0pl1-128+deb9u1_amd64.deb ... Unpacking cron (3.0pl1-128+deb9u1) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../02-liblocale-gettext-perl_1.07-3+b1_amd64.deb ... 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Unpacking libclass-trigger-perl (0.14-1) ... Selecting previously unselected package libuniversal-moniker-perl. Preparing to unpack .../0452-libuniversal-moniker-perl_0.08-7_all.deb ... Unpacking libuniversal-moniker-perl (0.08-7) ... Selecting previously unselected package libclass-dbi-perl. Preparing to unpack .../0453-libclass-dbi-perl_3.0.17-4_all.deb ... Unpacking libclass-dbi-perl (3.0.17-4) ... Selecting previously unselected package libdbd-pg-perl. Preparing to unpack .../0454-libdbd-pg-perl_3.5.3-1+b2_amd64.deb ... Unpacking libdbd-pg-perl (3.5.3-1+b2) ... Selecting previously unselected package libclass-dbi-pg-perl. Preparing to unpack .../0455-libclass-dbi-pg-perl_0.09-5_all.deb ... Unpacking libclass-dbi-pg-perl (0.09-5) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../0456-libxml-namespacesupport-perl_1.11-1_all.deb ... Unpacking libxml-namespacesupport-perl (1.11-1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../0457-libxml-sax-base-perl_1.07-1_all.deb ... Unpacking libxml-sax-base-perl (1.07-1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../0458-libxml-sax-perl_0.99+dfsg-2_all.deb ... Unpacking libxml-sax-perl (0.99+dfsg-2) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../0459-libxml-libxml-perl_2.0128+dfsg-1+deb9u1_amd64.deb ... Unpacking libxml-libxml-perl (2.0128+dfsg-1+deb9u1) ... Selecting previously unselected package libxml-libxslt-perl. Preparing to unpack .../0460-libxml-libxslt-perl_1.95-1+b1_amd64.deb ... Unpacking libxml-libxslt-perl (1.95-1+b1) ... Selecting previously unselected package liblog-log4perl-perl. Preparing to unpack .../0461-liblog-log4perl-perl_1.48-1+deb9u1_all.deb ... Unpacking liblog-log4perl-perl (1.48-1+deb9u1) ... Selecting previously unselected package libann0. 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Selecting previously unselected package libhtml-tree-perl. Preparing to unpack .../0480-libhtml-tree-perl_5.03-2_all.deb ... Unpacking libhtml-tree-perl (5.03-2) ... Selecting previously unselected package libio-html-perl. Preparing to unpack .../0481-libio-html-perl_1.001-1_all.deb ... Unpacking libio-html-perl (1.001-1) ... Selecting previously unselected package liblwp-mediatypes-perl. Preparing to unpack .../0482-liblwp-mediatypes-perl_6.02-1_all.deb ... Unpacking liblwp-mediatypes-perl (6.02-1) ... Selecting previously unselected package libhttp-message-perl. Preparing to unpack .../0483-libhttp-message-perl_6.11-1_all.deb ... Unpacking libhttp-message-perl (6.11-1) ... Selecting previously unselected package libhttp-cookies-perl. Preparing to unpack .../0484-libhttp-cookies-perl_6.01-1_all.deb ... Unpacking libhttp-cookies-perl (6.01-1) ... Selecting previously unselected package libhttp-negotiate-perl. Preparing to unpack .../0485-libhttp-negotiate-perl_6.00-2_all.deb ... Unpacking libhttp-negotiate-perl (6.00-2) ... Selecting previously unselected package perl-openssl-defaults:amd64. Preparing to unpack .../0486-perl-openssl-defaults_3_amd64.deb ... Unpacking perl-openssl-defaults:amd64 (3) ... Selecting previously unselected package libnet-ssleay-perl. Preparing to unpack .../0487-libnet-ssleay-perl_1.80-1_amd64.deb ... Unpacking libnet-ssleay-perl (1.80-1) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../0488-libio-socket-ssl-perl_2.044-1_all.deb ... Unpacking libio-socket-ssl-perl (2.044-1) ... Selecting previously unselected package libnet-http-perl. Preparing to unpack .../0489-libnet-http-perl_6.12-1_all.deb ... Unpacking libnet-http-perl (6.12-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../0490-liblwp-protocol-https-perl_6.06-2_all.deb ... Unpacking liblwp-protocol-https-perl (6.06-2) ... Selecting previously unselected package libwww-robotrules-perl. 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Selecting previously unselected package libxml-perl. Preparing to unpack .../0503-libxml-perl_0.08-2_all.deb ... Unpacking libxml-perl (0.08-2) ... Selecting previously unselected package libexporter-lite-perl. Preparing to unpack .../0504-libexporter-lite-perl_0.08-1_all.deb ... Unpacking libexporter-lite-perl (0.08-1) ... Selecting previously unselected package libclass-dbi-pager-perl. Preparing to unpack .../0505-libclass-dbi-pager-perl_0.08-4_all.deb ... Unpacking libclass-dbi-pager-perl (0.08-4) ... Selecting previously unselected package libxml-sax-expat-perl. Preparing to unpack .../0506-libxml-sax-expat-perl_0.40-2_all.deb ... Unpacking libxml-sax-expat-perl (0.40-2) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../0507-libxml-simple-perl_2.22-1_all.deb ... Unpacking libxml-simple-perl (2.22-1) ... Selecting previously unselected package libappconfig-perl. Preparing to unpack .../0508-libappconfig-perl_1.66-2_all.deb ... Unpacking libappconfig-perl (1.66-2) ... Selecting previously unselected package libtemplate-perl. Preparing to unpack .../0509-libtemplate-perl_2.24-1.2+b3_amd64.deb ... Unpacking libtemplate-perl (2.24-1.2+b3) ... Selecting previously unselected package libcgi-pm-perl. Preparing to unpack .../0510-libcgi-pm-perl_4.35-1_all.deb ... Unpacking libcgi-pm-perl (4.35-1) ... Selecting previously unselected package libcgi-session-perl. Preparing to unpack .../0511-libcgi-session-perl_4.48-3_all.deb ... Unpacking libcgi-session-perl (4.48-3) ... Selecting previously unselected package libfreezethaw-perl. Preparing to unpack .../0512-libfreezethaw-perl_0.5001-1_all.deb ... Unpacking libfreezethaw-perl (0.5001-1) ... Selecting previously unselected package libdbix-dbschema-perl. Preparing to unpack .../0513-libdbix-dbschema-perl_0.45-1_all.deb ... Unpacking libdbix-dbschema-perl (0.45-1) ... Selecting previously unselected package libdbix-dbstag-perl. Preparing to unpack .../0514-libdbix-dbstag-perl_0.12-2_all.deb ... Unpacking libdbix-dbstag-perl (0.12-2) ... Selecting previously unselected package libmodule-build-perl. Preparing to unpack .../0515-libmodule-build-perl_0.422000-1_all.deb ... Adding 'diversion of /usr/bin/config_data to /usr/bin/config_data.diverted by libmodule-build-perl' Adding 'diversion of /usr/share/man/man1/config_data.1.gz to /usr/share/man/man1/config_data.diverted.1.gz by libmodule-build-perl' Unpacking libmodule-build-perl (0.422000-1) ... Selecting previously unselected package libchado-perl. Preparing to unpack .../0516-libchado-perl_1.31-3_all.deb ... Unpacking libchado-perl (1.31-3) ... Selecting previously unselected package chado-utils. Preparing to unpack .../0517-chado-utils_1.31-3_all.deb ... Unpacking chado-utils (1.31-3) ... Selecting previously unselected package microbiomeutil-data. Preparing to unpack .../0518-microbiomeutil-data_20101212+dfsg1-1_all.deb ... Unpacking microbiomeutil-data (20101212+dfsg1-1) ... Selecting previously unselected package chimeraslayer. Preparing to unpack .../0519-chimeraslayer_20101212+dfsg1-1_all.deb ... Unpacking chimeraslayer (20101212+dfsg1-1) ... Selecting previously unselected package python3-jdcal. Preparing to unpack .../0520-python3-jdcal_1.0-1.2~deb9u1_all.deb ... Unpacking python3-jdcal (1.0-1.2~deb9u1) ... Selecting previously unselected package python3-lxml. Preparing to unpack .../0521-python3-lxml_3.7.1-1_amd64.deb ... Unpacking python3-lxml (3.7.1-1) ... Selecting previously unselected package python3-openpyxl. Preparing to unpack .../0522-python3-openpyxl_2.3.0-3_all.deb ... Unpacking python3-openpyxl (2.3.0-3) ... Selecting previously unselected package prodigal. Preparing to unpack .../0523-prodigal_1%3a2.6.3-1+b1_amd64.deb ... Unpacking prodigal (1:2.6.3-1+b1) ... Selecting previously unselected package libhat-trie0:amd64. Preparing to unpack .../0524-libhat-trie0_0.0~git25f9e946-2_amd64.deb ... Unpacking libhat-trie0:amd64 (0.0~git25f9e946-2) ... Selecting previously unselected package libjemalloc1. Preparing to unpack .../0525-libjemalloc1_3.6.0-9.1_amd64.deb ... Unpacking libjemalloc1 (3.6.0-9.1) ... Selecting previously unselected package libnlopt0:amd64. Preparing to unpack .../0526-libnlopt0_2.4.2+dfsg-2+b2_amd64.deb ... Unpacking libnlopt0:amd64 (2.4.2+dfsg-2+b2) ... Selecting previously unselected package libssw0:amd64. Preparing to unpack .../0527-libssw0_1.1-1+b1_amd64.deb ... Unpacking libssw0:amd64 (1.1-1+b1) ... Selecting previously unselected package python-joblib. Preparing to unpack .../0528-python-joblib_0.10.3+git55-g660fe5d-1_all.deb ... Unpacking python-joblib (0.10.3+git55-g660fe5d-1) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../0529-libyaml-0-2_0.1.7-2_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.1.7-2) ... Selecting previously unselected package python-yaml. Preparing to unpack .../0530-python-yaml_3.12-1_amd64.deb ... Unpacking python-yaml (3.12-1) ... Selecting previously unselected package spades. Preparing to unpack .../0531-spades_3.9.1+dfsg-1_amd64.deb ... Unpacking spades (3.9.1+dfsg-1) ... Selecting previously unselected package circlator. Preparing to unpack .../0532-circlator_1.4.1-1_all.deb ... Unpacking circlator (1.4.1-1) ... Selecting previously unselected package fonts-circos-symbols. Preparing to unpack .../0533-fonts-circos-symbols_0.69.4+dfsg-1_all.deb ... Unpacking fonts-circos-symbols (0.69.4+dfsg-1) ... Selecting previously unselected package fonts-cmu. Preparing to unpack .../0534-fonts-cmu_0.7.0-3_all.deb ... Unpacking fonts-cmu (0.7.0-3) ... Selecting previously unselected package libregexp-common-perl. Preparing to unpack .../0535-libregexp-common-perl_2016060801-1_all.deb ... Unpacking libregexp-common-perl (2016060801-1) ... Selecting previously unselected package libcarp-always-perl. Preparing to unpack .../0536-libcarp-always-perl_0.12-1_all.deb ... Unpacking libcarp-always-perl (0.12-1) ... Selecting previously unselected package libconfig-general-perl. Preparing to unpack .../0537-libconfig-general-perl_2.63-1_all.deb ... Unpacking libconfig-general-perl (2.63-1) ... Selecting previously unselected package libdata-dumper-simple-perl. Preparing to unpack .../0538-libdata-dumper-simple-perl_0.11-5_all.deb ... Unpacking libdata-dumper-simple-perl (0.11-5) ... Selecting previously unselected package libgetopt-simple-perl. Preparing to unpack .../0539-libgetopt-simple-perl_1.52-5_all.deb ... Unpacking libgetopt-simple-perl (1.52-5) ... Selecting previously unselected package libmath-bezier-perl. Preparing to unpack .../0540-libmath-bezier-perl_0.01-2_all.deb ... Unpacking libmath-bezier-perl (0.01-2) ... Selecting previously unselected package libmath-round-perl. Preparing to unpack .../0541-libmath-round-perl_0.07-1_all.deb ... Unpacking libmath-round-perl (0.07-1) ... Selecting previously unselected package libparams-validate-perl. Preparing to unpack .../0542-libparams-validate-perl_1.26-1_amd64.deb ... Unpacking libparams-validate-perl (1.26-1) ... Selecting previously unselected package libreadonly-perl. Preparing to unpack .../0543-libreadonly-perl_2.050-1_all.deb ... Unpacking libreadonly-perl (2.050-1) ... Selecting previously unselected package libset-intspan-perl. Preparing to unpack .../0544-libset-intspan-perl_1.19-1_all.deb ... Unpacking libset-intspan-perl (1.19-1) ... Selecting previously unselected package liblist-someutils-perl. Preparing to unpack .../0545-liblist-someutils-perl_0.53-1_all.deb ... Unpacking liblist-someutils-perl (0.53-1) ... Selecting previously unselected package liblist-utilsby-perl. Preparing to unpack .../0546-liblist-utilsby-perl_0.10-1_all.deb ... Unpacking liblist-utilsby-perl (0.10-1) ... Selecting previously unselected package liblist-allutils-perl. Preparing to unpack .../0547-liblist-allutils-perl_0.12-1_all.deb ... Unpacking liblist-allutils-perl (0.12-1) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../0548-libipc-system-simple-perl_1.25-3_all.deb ... Unpacking libipc-system-simple-perl (1.25-3) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../0549-libfile-basedir-perl_0.07-1_all.deb ... Unpacking libfile-basedir-perl (0.07-1) ... Selecting previously unselected package libmath-vec-perl. Preparing to unpack .../0550-libmath-vec-perl_1.01-3_all.deb ... Unpacking libmath-vec-perl (1.01-3) ... Selecting previously unselected package libspiffy-perl. Preparing to unpack .../0551-libspiffy-perl_0.41-1_all.deb ... Unpacking libspiffy-perl (0.41-1) ... Selecting previously unselected package libio-all-perl. Preparing to unpack .../0552-libio-all-perl_0.86-2_all.deb ... 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Adding 'diversion of /usr/bin/efetch to /usr/bin/efetch.acedb by ncbi-entrez-direct' Adding 'diversion of /usr/share/man/man1/efetch.1.gz to /usr/share/man/man1/efetch.acedb.1.gz by ncbi-entrez-direct' Adding 'diversion of /usr/bin/einfo to /usr/bin/einfo.epub by ncbi-entrez-direct' Adding 'diversion of /usr/share/man/man1/einfo.1.gz to /usr/share/man/man1/einfo.epub.1.gz by ncbi-entrez-direct' Unpacking ncbi-entrez-direct (6.10.20170123+ds-1) ... Selecting previously unselected package ncbi-tools-bin. Preparing to unpack .../1562-ncbi-tools-bin_6.1.20170106+dfsg1-0+deb9u1_amd64.deb ... Unpacking ncbi-tools-bin (6.1.20170106+dfsg1-0+deb9u1) ... Selecting previously unselected package ncbi-tools-x11. Preparing to unpack .../1563-ncbi-tools-x11_6.1.20170106+dfsg1-0+deb9u1_amd64.deb ... Unpacking ncbi-tools-x11 (6.1.20170106+dfsg1-0+deb9u1) ... Selecting previously unselected package ncl-tools. Preparing to unpack .../1564-ncl-tools_2.1.18+dfsg-2+b1_amd64.deb ... 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Selecting previously unselected package qt-at-spi:amd64. Preparing to unpack .../1757-qt-at-spi_0.4.0-5_amd64.deb ... Unpacking qt-at-spi:amd64 (0.4.0-5) ... Selecting previously unselected package qt5-gtk-platformtheme:amd64. Preparing to unpack .../1758-qt5-gtk-platformtheme_5.7.1+dfsg-3+deb9u2_amd64.deb ... Unpacking qt5-gtk-platformtheme:amd64 (5.7.1+dfsg-3+deb9u2) ... Selecting previously unselected package qtltools. Preparing to unpack .../1759-qtltools_1.1+dfsg-1_amd64.deb ... Unpacking qtltools (1.1+dfsg-1) ... Selecting previously unselected package qttranslations5-l10n. Preparing to unpack .../1760-qttranslations5-l10n_5.7.1~20161021-1_all.deb ... Unpacking qttranslations5-l10n (5.7.1~20161021-1) ... Selecting previously unselected package r-cran-boot. Preparing to unpack .../1761-r-cran-boot_1.3-18-2_all.deb ... Unpacking r-cran-boot (1.3-18-2) ... Selecting previously unselected package r-cran-foreign. Preparing to unpack .../1762-r-cran-foreign_0.8.67-1_amd64.deb ... 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Setting up libopenjp2-7:amd64 (2.1.2-1.1+deb9u4) ... Setting up libxdot4 (2.38.0-17) ... Setting up libbpp-core2v5:amd64 (2.2.0-3) ... Setting up libqhull7:amd64 (2015.2-2) ... Setting up libasyncns0:amd64 (0.8-6) ... Setting up libjs-highlight.js (8.2+ds-5) ... Setting up libboost-date-time1.62.0:amd64 (1.62.0+dfsg-4) ... Setting up libsc-data (2.3.1-18+deb9u1) ... Setting up leaff (0~20150903+r2013-3) ... Setting up r-cran-permute (0.9-4-1) ... Setting up libptexenc1:amd64 (2016.20160513.41080.dfsg-2+deb9u1) ... Setting up fonts-gfs-neohellenic (1.1-6) ... Setting up libpostgresql-jdbc-java (9.4.1212-1) ... Setting up seqtk (1.2-1) ... Setting up sickle (1.33-1+b1) ... Setting up glib-networking-common (2.50.0-1+deb9u1) ... Setting up info (6.3.0.dfsg.1-1+b2) ... update-alternatives: using /usr/bin/info to provide /usr/bin/infobrowser (infobrowser) in auto mode Setting up libtinyxml2.6.2v5:amd64 (2.6.2-4) ... Setting up libmtj-java (0.9.14+dfsg-4) ... 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Setting up libgpm2:amd64 (1.20.4-6.2+b1) ... Setting up libldap-common (2.4.44+dfsg-5+deb9u4) ... Setting up libpthread-stubs0-dev:amd64 (0.3-4) ... Setting up kineticstools-data (0.6.1+20161222-1) ... Setting up r-mathlib (3.3.3-1) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up xbitmaps (1.1.1-2) ... Setting up fonts-linuxlibertine (5.3.0-2) ... Setting up poppler-data (0.4.7-8) ... Setting up sumaclust (1.0.20-1+b1) ... Setting up libbamtools2.4.0 (2.4.1+dfsg-1) ... Setting up libboost-program-options1.62.0:amd64 (1.62.0+dfsg-4) ... Setting up vsearch (2.3.4-1) ... Setting up libcilkrts5:amd64 (6.3.0-18+deb9u1) ... Setting up libbpp-core-dev (2.2.0-3) ... -- Creating generic include file: /usr/include/Bpp.all -- Creating generic include file: /usr/include/Bpp/App.all -- Creating generic include file: /usr/include/Bpp/Graph.all -- Creating generic include file: /usr/include/Bpp/Graphics.all -- Creating generic include file: /usr/include/Bpp/Graphics/Fig.all -- Creating generic include file: /usr/include/Bpp/Graphics/Font.all -- Creating generic include file: /usr/include/Bpp/Graphics/Latex.all -- Creating generic include file: /usr/include/Bpp/Graphics/Molscript.all -- Creating generic include file: /usr/include/Bpp/Graphics/R.all -- Creating generic include file: /usr/include/Bpp/Graphics/Svg.all -- Creating generic include file: /usr/include/Bpp/Io.all -- Creating generic include file: /usr/include/Bpp/Numeric.all -- Creating generic include file: /usr/include/Bpp/Numeric/Function.all -- Creating generic include file: /usr/include/Bpp/Numeric/Hmm.all -- Creating generic include file: /usr/include/Bpp/Numeric/Matrix.all -- Creating generic include file: /usr/include/Bpp/Numeric/Prob.all -- Creating generic include file: /usr/include/Bpp/Numeric/Random.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat/Mva.all -- Creating generic include file: /usr/include/Bpp/Phyl.all -- Creating generic include file: /usr/include/Bpp/Phyl/App.all -- Creating generic include file: /usr/include/Bpp/Phyl/Distance.all -- Creating generic include file: /usr/include/Bpp/Phyl/Graphics.all -- Creating generic include file: /usr/include/Bpp/Phyl/Io.all -- Creating generic include file: /usr/include/Bpp/Phyl/Likelihood.all -- Creating generic include file: /usr/include/Bpp/Phyl/Mapping.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Codon.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/FrequenciesSet.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Nucleotide.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Protein.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/RateDistribution.all -- Creating generic include file: /usr/include/Bpp/Phyl/Parsimony.all -- Creating generic include file: /usr/include/Bpp/Phyl/Simulation.all -- Creating generic include file: /usr/include/Bpp/PopGen.all -- Creating generic include file: /usr/include/Bpp/Qt.all -- Creating generic include file: /usr/include/Bpp/Qt/Tree.all -- Creating generic include file: /usr/include/Bpp/Raa.all -- Creating generic include file: /usr/include/Bpp/Seq.all -- Creating generic include file: /usr/include/Bpp/Seq/Alphabet.all -- Creating generic include file: /usr/include/Bpp/Seq/AlphabetIndex.all -- Creating generic include file: /usr/include/Bpp/Seq/App.all -- Creating generic include file: /usr/include/Bpp/Seq/Container.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gff.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gtf.all -- Creating generic include file: /usr/include/Bpp/Seq/GeneticCode.all -- Creating generic include file: /usr/include/Bpp/Seq/Io.all -- Creating generic include file: /usr/include/Bpp/Seq/Io/Maf.all -- Creating generic include file: /usr/include/Bpp/Text.all -- Creating generic include file: /usr/include/Bpp/Utils.all Setting up libdjvulibre-text (3.5.27.1-7) ... Setting up libssw0:amd64 (1.1-1+b1) ... Setting up suitename (0.3.070628-1+b1) ... Processing triggers for install-info (6.3.0.dfsg.1-1+b2) ... Setting up libgtextutils0v5:amd64 (0.7-4) ... Setting up rate4site (3.0.0-4+b1) ... Setting up perl-openssl-defaults:amd64 (3) ... Setting up sortmerna (2.1-1+b1) ... Setting up libblas-common (3.7.0-2) ... Setting up libjargs-java (1.0.0-4) ... Setting up libpng-tools (1.6.28-1+deb9u1) ... Setting up libsprng2 (2.0a-10) ... Setting up sibsim4 (0.20-2+b1) ... Setting up libpal-java (1.5.1+dfsg-2) ... Setting up spaced (1.0.2+dfsg-1+b1) ... Setting up libsnp-sites1 (2.3.2-1) ... Setting up libnuma1:amd64 (2.0.11-2.1) ... Setting up tzdata (2020a-0+deb9u1) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Apr 20 05:37:00 UTC 2023. Universal Time is now: Thu Apr 20 05:37:00 UTC 2023. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libjson-simple-java (1.1.1-4) ... Setting up dazzdb (1.0+20161112-2) ... 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Setting up java-common (0.58+deb9u1) ... Setting up fonts-oflb-asana-math (000.907-6) ... Setting up libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Setting up hhsuite-data (3.0~beta2+dfsg-3) ... Setting up libjebl2-java (0.1+20140614-1) ... Setting up libcommons-net-java (3.5-1) ... Setting up libtinfo-dev:amd64 (6.0+20161126-1+deb9u2) ... Setting up parafly (0.0.2013.01.21-3+b1) ... Setting up libzstd1 (1.1.2-1) ... Setting up libjloda-java (0.0+20161018-1) ... Setting up libssw-dev:amd64 (1.1-1+b1) ... Setting up lua-filesystem:amd64 (1.6.3-1) ... Setting up libgc1c2:amd64 (1:7.4.2-8) ... Setting up libcapnp-0.5.3 (0.5.3-2) ... Setting up fonts-lobster (2.0-2) ... Setting up libdisorder-dev:amd64 (0.0.2-1) ... Setting up libjs-sphinxdoc (1.4.9-2) ... Setting up fonts-gfs-solomos (1.1-5) ... Setting up libsuitesparseconfig4:amd64 (1:4.5.4-1) ... Setting up menu (2.1.47+b1) ... Setting up concavity (0.1+dfsg.1-1) ... Setting up apache2-data (2.4.25-3+deb9u9) ... 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Setting up librostlab-blast0v5 (1.0.1-7) ... Setting up libpipeline1:amd64 (1.4.1-2) ... Setting up dawg (1.2-1+b1) ... Setting up libksba8:amd64 (1.3.5-2) ... Setting up x11proto-kb-dev (1.0.7-1) ... Setting up libmariadbclient18:amd64 (10.1.45-0+deb9u1) ... Setting up libglapi-mesa:amd64 (13.0.6-1+b2) ... Setting up fonts-texgyre (20160520-1) ... Setting up plast (2.3.1+dfsg-4) ... Setting up massxpert-data (3.6.1-1) ... Setting up sniffles (1.0.2+ds-1) ... Setting up libjs-mootools (1.4.5~debian1-2.1) ... Setting up python-biopython-doc (1.68+dfsg-3) ... Setting up lua-md5:amd64 (1.2+git+1+8d87fee-1) ... Setting up libgsl2:amd64 (2.3+dfsg-1) ... Setting up kmc (2.3+dfsg-5) ... Setting up m4 (1.4.18-1) ... Setting up sgml-base (1.29) ... Setting up libcommons-math3-java (3.6.1-2) ... Setting up filo (1.1.0-3+b1) ... Setting up libmaloc1 (0.2-3.1) ... Setting up fonts-crosextra-carlito (20130920-1) ... Setting up libtre5:amd64 (0.8.0-6) ... Setting up libfftw3-double3:amd64 (3.3.5-3) ... Setting up libcdparanoia0:amd64 (3.10.2+debian-11) ... Setting up gawk (1:4.1.4+dfsg-1) ... Setting up librostlab3 (1.0.20-6) ... Setting up med-all (3.0.1) ... Setting up libbsd0:amd64 (0.8.3-1) ... Setting up libcqrlib2:amd64 (1.1.2-2.1+b2) ... Setting up fonts-liberation (1:1.07.4-2) ... Setting up libjs-es5-shim (4.5.9-1) ... Setting up gnustep-common (2.6.8-2.1) ... Setting up python-backports-shutil-get-terminal-size (1.0.0-3) ... Setting up libprocps6:amd64 (2:3.3.12-3+deb9u1) ... Setting up laptop-detect (0.13.8) ... Setting up libnspr4:amd64 (2:4.12-6) ... Setting up ucf (3.0036) ... Setting up libjbzip2-java (0.9.1-3) ... Setting up xfonts-encodings (1:1.0.4-2) ... Setting up fonts-ebgaramond-extra (0.016-1) ... Setting up mira-rfam-12s-rrna (4.9.6-2) ... Will install rfam_rrna-21-12 with kmer size 21 as MIRA default rRNA filter in /usr/bin/../share/mira/mhs Installing. This can take a minute or two, please be patient. Done. MIRA can now use the functionality to filter for rRNA during assemblies. MIRABAIT can now use the '-j rrna' option. Setting up fonts-font-awesome (4.7.0~dfsg-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-2.2+deb9u2) ... Setting up libgkarrays-dev (2.1.0+dfsg-1) ... Setting up libutempter0:amd64 (1.1.6-3) ... Setting up zip (3.0-11+b1) ... Setting up tm-align (20160521+dfsg-2) ... Setting up fonts-junicode (0.7.8-2) ... Setting up libjxr0:amd64 (1.1-6+b1) ... Setting up libsbml5 (5.13.0+dfsg-1) ... Setting up dssp (2.2.1-3+b2) ... Setting up libngs-sdk1 (1.3.0-2) ... Setting up libvcflib1 (1.0.0~rc1+dfsg1-3) ... Setting up libopus0:amd64 (1.2~alpha2-1) ... Setting up libfreetype6:amd64 (2.6.3-3.2+deb9u1) ... Setting up libtasn1-6:amd64 (4.10-1.1+deb9u1) ... Setting up libmagic-mgc (1:5.30-1+deb9u3) ... Setting up fonts-noto-mono (20161116-1) ... Setting up libjs-d3 (3.5.17-2) ... Setting up gnupg-l10n (2.1.18-8~deb9u4) ... Setting up libwxbase3.0-0v5:amd64 (3.0.2+dfsg-4) ... Setting up libasound2:amd64 (1.1.3-5) ... Setting up libtamuanova-0.2 (0.2-4) ... Setting up libibatis-java (2.3.4.726-6) ... Setting up libdrm2:amd64 (2.4.74-1) ... Setting up bzip2 (1.0.6-8.1) ... Setting up libncl1 (2.1.18+dfsg-2+b1) ... Setting up libmagic1:amd64 (1:5.30-1+deb9u3) ... Setting up dialign-tx-data (1.0.2-9) ... Setting up libhogweed4:amd64 (3.3-1+b2) ... Setting up fastml (3.1-3) ... Setting up libgraphite2-3:amd64 (1.3.10-1) ... Setting up adapterremoval (2.2.0-1) ... Setting up rsync (3.1.2-1+deb9u2) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up liblsan0:amd64 (6.3.0-18+deb9u1) ... Setting up procps (2:3.3.12-3+deb9u1) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up gwama (2.2.2+dfsg-1) ... Setting up fonts-lato (2.0-1) ... Setting up libxslt1.1:amd64 (1.1.29-2.1+deb9u2) ... Setting up fsm-lite (1.0-2) ... Setting up sim4 (0.0.20121010-4) ... Setting up soapdenovo2 (240+dfsg1-2) ... Setting up libpsm-infinipath1 (3.3+19.g67c0807.open-3) ... Setting up raxml (8.2.9+dfsg-1+b1) ... Setting up libjsr305-java (0.1~+svn49-10) ... Setting up perl (5.24.1-3+deb9u7) ... update-alternatives: using /usr/bin/prename to provide /usr/bin/rename (rename) in auto mode Setting up libprotobuf10:amd64 (3.0.0-9) ... Setting up cdbfasta (0.99-20100722-3) ... Setting up lambda-align (1.0.1-2) ... Setting up libfile-pushd-perl (1.014-1) ... Setting up libzip4:amd64 (1.1.2-1.1+b1) ... Setting up amap-align (2.2-6) ... Setting up profnet-isis (1.0.22-4) ... Setting up libjs-json (0~20160510-1) ... Setting up libogg0:amd64 (1.3.2-1) ... Setting up libball1.4-data (1.4.3~beta1-3) ... Setting up libenv-path-perl (0.19-1) ... Setting up libfile-chdir-perl (0.1008-1) ... Setting up libsys-hostname-long-perl (1.5-1) ... Setting up acedb-other (4.9.39+dfsg.02-1) ... Setting up libexporter-lite-perl (0.08-1) ... Setting up libjline-java (1.0-2) ... 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Setting up rdp-classifier-doc (2.10.2-1) ... Setting up libmldbm-perl (2.05-2) ... Setting up libalgorithm-diff-perl (1.19.03-1) ... Setting up libfribidi0:amd64 (0.19.7-1+deb9u1) ... Setting up liblocale-gettext-perl (1.07-3+b1) ... Setting up probalign (1.4-5) ... Setting up libncbi-wvdb2 (2.8.1+dfsg-2) ... Setting up libitext1-java (1.4-6) ... Setting up libclone-perl (0.38-2+b1) ... Setting up ncl-tools (2.1.18+dfsg-2+b1) ... Setting up miniasm (0.2+dfsg-2+b1) ... Setting up emboss-data (6.6.0+dfsg-6) ... Setting up ttf-bitstream-vera (1.10-8) ... Setting up libx11-doc (2:1.6.4-3+deb9u1) ... Setting up profnet-snapfun (1.0.22-4) ... Setting up libpciaccess0:amd64 (0.13.4-1+b2) ... Setting up libccolamd2:amd64 (1:4.5.4-1) ... Setting up icedtea-netx-common (1.6.2-3.1+deb9u1) ... Setting up libfftw3-single3:amd64 (3.3.5-3) ... Setting up python-sympy-doc (1.0-3) ... Setting up libpotrace0 (1.13-3) ... Setting up libclass-xsaccessor-perl (1.19-2+b7) ... 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Setting up libfilesys-notify-simple-perl (0.12-1) ... Setting up libmpc3:amd64 (1.0.3-1+b2) ... Setting up pirs-profiles (2.0.2+dfsg-5.1) ... Setting up libappconfig-perl (1.66-2) ... Setting up libbambamc0 (0.0.50-1) ... Setting up libsrf-dev (0.1+dfsg-4) ... Setting up libcrypt-rc4-perl (2.02-2) ... Setting up libtest-pod-perl (1.51-1) ... Setting up poa (2.0+20060928-4+b1) ... Setting up muscle (1:3.8.31+dfsg-2) ... Setting up binutils (2.28-5) ... Setting up libffi6:amd64 (3.2.1-6) ... Setting up andi (0.10-2) ... Setting up cpp-6 (6.3.0-18+deb9u1) ... Setting up libtext-format-perl (0.60-1) ... Setting up icu-devtools (57.1-6+deb9u4) ... Setting up libtext-charwidth-perl (0.04-7+b5) ... Setting up liblua5.1-0:amd64 (5.1.5-8.1+b2) ... Setting up libssl-doc (1.1.0l-1~deb9u1) ... Setting up libjs-bootstrap (3.3.7+dfsg-2+deb9u2) ... Setting up libgraphics-colornames-perl (2.11-7.1) ... Setting up libc-dev-bin (2.24-11+deb9u4) ... Setting up liblua5.2-0:amd64 (5.2.4-1.1+b2) ... Setting up libtest-sharedfork-perl (0.35-1) ... Setting up libdrm-radeon1:amd64 (2.4.74-1) ... Setting up fonts-gfs-didot (1.1-6) ... Setting up aglfn (1.7-3) ... Setting up libunicode-utf8-perl (0.60-1+b3) ... Setting up python-cobra-data (0.5.9-1) ... Setting up parsinsert (1.04-2) ... Setting up liborc-0.4-0:amd64 (1:0.4.26-2) ... Setting up libpcre16-3:amd64 (2:8.39-3) ... Setting up python-mako-doc (1.0.6+ds1-2) ... Setting up libconvert-binary-c-perl (0.78-1+b1) ... Setting up libgenome-1.3-dev (1.3.1-9) ... Setting up libtcl8.6:amd64 (8.6.6+dfsg-1+b1) ... Setting up profnet-chop (1.0.22-4) ... Setting up libthai-data (0.1.26-1) ... Setting up liberfa1:amd64 (1.3.0-2) ... Setting up liblzma-dev:amd64 (5.2.2-1.2+b1) ... Setting up scrm (1.7.2-1+b1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up xml-core (0.17) ... Setting up javascript-common (11) ... Package apache2 is not configured yet. Will defer actions by package javascript-common. Setting up ocl-icd-libopencl1:amd64 (2.2.11-1) ... Setting up tree-puzzle-doc (5.2-8) ... Setting up libhdf4-0-alt (4.2.12-3) ... Setting up libgflags2v5 (2.1.2-4) ... Setting up libsquizz (0.99c+dfsg-1) ... Setting up libmems-1.6-1v5:amd64 (1.6.0+4725-4) ... Setting up fonts-gfs-artemisia (1.1-5) ... Setting up perm (0.4.0-2) ... Setting up libkeyutils1:amd64 (1.5.9-9) ... Setting up fonts-cmu (0.7.0-3) ... Setting up libdrm-nouveau2:amd64 (2.4.74-1) ... Setting up bsdmainutils (9.0.12+nmu1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up seqan-apps (2.3.1+dfsg-4) ... Setting up profphd-net (1.0.22-4) ... Setting up gff2ps (0.98d-5) ... Setting up libgmpxx4ldbl:amd64 (2:6.1.2+dfsg-1) ... Setting up libprefork-perl (1.04-2) ... Setting up barrnap (0.7+dfsg-2) ... Setting up libsasl2-modules:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Setting up bc (1.06.95-9+b3) ... Setting up libmodule-build-perl (0.422000-1) ... Setting up libconvert-binhex-perl (1.125-1) ... Setting up libstring-approx-perl (3.27-1+b4) ... Setting up ttf-adf-universalis (0.20090423-2) ... Setting up libio-sessiondata-perl (1.03-1) ... Setting up libsamplerate0:amd64 (0.1.8-8+b2) ... Setting up libcommons-codec-java (1.10-1) ... Setting up libjson-perl (2.90-1) ... Setting up libnl-3-200:amd64 (3.2.27-2) ... Setting up librelion-dev-common (1.4+dfsg-2) ... Setting up libsub-uplevel-perl (0.2600-1) ... Setting up libpadwalker-perl (2.2-2+b1) ... Setting up fonts-dejavu-extra (2.37-1) ... Setting up libparams-util-perl (1.07-3+b1) ... Setting up libnaga-java (3.0+svn80-1) ... Setting up fonts-freefont-ttf (20120503-6) ... Setting up libjs-jquery-metadata (11-3) ... Setting up ruby-minitest (5.9.0-1) ... Setting up libjs-prototype (1.7.1-3) ... Setting up libvorbis0a:amd64 (1.3.5-4+deb9u2) ... Setting up libmodule-refresh-perl (0.17-1) ... Setting up libxmlunit-java (1.6-1) ... Setting up lynx-common (2.8.9dev11-1) ... Setting up libzzip-0-13:amd64 (0.13.62-3.2~deb9u1) ... Setting up fonts-sil-gentium (20081126:1.03-1) ... Setting up mustang (3.2.3-1) ... Setting up clustalw (2.1+lgpl-5) ... Setting up xdg-utils (1.1.1-1+deb9u2) ... Setting up libsub-name-perl (0.21-1) ... Setting up ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 126 added, 0 removed; done. Setting up libtext-csv-perl (1.33-2) ... Setting up libalgorithm-munkres-perl (0.08-3) ... Setting up manpages-dev (4.10-2) ... Setting up libnlopt0:amd64 (2.4.2+dfsg-2+b2) ... Setting up libyaml-libyaml-perl (0.63-2) ... Setting up hicolor-icon-theme (0.15-1) ... Setting up fastahack (0.0+20160702-1+b1) ... Setting up libc6-dev:amd64 (2.24-11+deb9u4) ... Setting up libpth20:amd64 (2.0.7-20+b2) ... Setting up cron (3.0pl1-128+deb9u1) ... Adding group `crontab' (GID 151) ... Done. update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libfile-copy-link-perl (0.140-2) ... Setting up libxpp3-java (1.1.4c-2) ... Setting up fonts-sil-gentium-basic (1.1-7) ... Setting up libpostscript-perl (0.06-2) ... Setting up libparams-classify-perl (0.013-6+b1) ... Setting up libassuan0:amd64 (2.4.3-2) ... Setting up libgetopt-java (1.0.14+dfsg-3) ... Setting up libfcgi-perl (0.78-2) ... Setting up minia (1.6906-1+b2) ... Setting up lua-lpeg:amd64 (1.0.0-1) ... Setting up autodock (4.2.6-3+b1) ... ---------------------------------------------------------------------- ______ / \ / \ / \ \ /\ / \ / \ / \/ /\ \/ / \ /____\ AutoDock and AutoGrid are free software, distributed under the terms of the GNU General Public License 2 or later. This allows us to share the code and to be open for improvement from the whole scientific community. The development of the AutoDock suite is entirely funded by research grants. For that reason, we ask you to register at the AutoDock Registration page http://autodock.scripps.edu/downloads/autodock-registration in order to keep track of number of unique downloads, which we use to support the grant applications. Installing the Debian popularity-contest package is also encouraged. Thank you, and happy docking! The AutoDock Development Team If you plan to use AutoDock for commercial purposes we encourage donations to the Olson laboratory to help support further development of the AutoDock 4 suite of programs. Donation information provided on the download page. ---------------------------------------------------------------------- Setting up hdf5-helpers (1.10.0-patch1+docs-3+deb9u1) ... Setting up xdg-user-dirs (0.15-2+b1) ... Setting up libwww-robotrules-perl (6.01-1) ... 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Setting up binfmt-support (2.1.6-2) ... update-binfmts: warning: python3.5 already enabled in kernel. update-binfmts: warning: python2.7 already enabled in kernel. invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up gnustep-base-common (1.24.9-3.1+deb9u1) ... Setting up libmath-vecstat-perl (0.08-1) ... Setting up libdevel-symdump-perl (2.17-1) ... Setting up libhttp-multipartparser-perl (0.01-1) ... Setting up libblosc1 (1.11.1+ds2-1) ... Setting up mafft (7.307-1) ... Setting up libtest-deep-perl (1.126-1) ... Setting up libdata-optlist-perl (0.110-1) ... Setting up libio-stringy-perl (2.111-2) ... Setting up libbpp-seq9v5:amd64 (2.2.0-1+b1) ... Setting up libatlas3-base (3.10.3-1+b1) ... Setting up libparse-yapp-perl (1.05-12) ... Setting up libcxsparse3:amd64 (1:4.5.4-1) ... Setting up libcommon-sense-perl (3.74-2) ... Setting up libsm6:amd64 (2:1.2.2-1+b3) ... Setting up libhpdf-2.2.1 (2.2.1-1.1+b1) ... 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Setting up libbpp-popgen-dev (2.2.0-1) ... -- Creating generic include file: /usr/include/Bpp.all -- Creating generic include file: /usr/include/Bpp/App.all -- Creating generic include file: /usr/include/Bpp/Graph.all -- Creating generic include file: /usr/include/Bpp/Graphics.all -- Creating generic include file: /usr/include/Bpp/Graphics/Fig.all -- Creating generic include file: /usr/include/Bpp/Graphics/Font.all -- Creating generic include file: /usr/include/Bpp/Graphics/Latex.all -- Creating generic include file: /usr/include/Bpp/Graphics/Molscript.all -- Creating generic include file: /usr/include/Bpp/Graphics/R.all -- Creating generic include file: /usr/include/Bpp/Graphics/Svg.all -- Creating generic include file: /usr/include/Bpp/Io.all -- Creating generic include file: /usr/include/Bpp/Numeric.all -- Creating generic include file: /usr/include/Bpp/Numeric/Function.all -- Creating generic include file: /usr/include/Bpp/Numeric/Hmm.all -- Creating generic include file: /usr/include/Bpp/Numeric/Matrix.all -- Creating generic include file: /usr/include/Bpp/Numeric/Prob.all -- Creating generic include file: /usr/include/Bpp/Numeric/Random.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat/Mva.all -- Creating generic include file: /usr/include/Bpp/Phyl.all -- Creating generic include file: /usr/include/Bpp/Phyl/App.all -- Creating generic include file: /usr/include/Bpp/Phyl/Distance.all -- Creating generic include file: /usr/include/Bpp/Phyl/Graphics.all -- Creating generic include file: /usr/include/Bpp/Phyl/Io.all -- Creating generic include file: /usr/include/Bpp/Phyl/Likelihood.all -- Creating generic include file: /usr/include/Bpp/Phyl/Mapping.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Codon.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/FrequenciesSet.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Nucleotide.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Protein.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/RateDistribution.all -- Creating generic include file: /usr/include/Bpp/Phyl/Parsimony.all -- Creating generic include file: /usr/include/Bpp/Phyl/Simulation.all -- Creating generic include file: /usr/include/Bpp/PopGen.all -- Creating generic include file: /usr/include/Bpp/Qt.all -- Creating generic include file: /usr/include/Bpp/Qt/Tree.all -- Creating generic include file: /usr/include/Bpp/Raa.all -- Creating generic include file: /usr/include/Bpp/Seq.all -- Creating generic include file: /usr/include/Bpp/Seq/Alphabet.all -- Creating generic include file: /usr/include/Bpp/Seq/AlphabetIndex.all -- Creating generic include file: /usr/include/Bpp/Seq/App.all -- Creating generic include file: /usr/include/Bpp/Seq/Container.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gff.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gtf.all -- Creating generic include file: /usr/include/Bpp/Seq/GeneticCode.all -- Creating generic include file: /usr/include/Bpp/Seq/Io.all -- Creating generic include file: /usr/include/Bpp/Seq/Io/Maf.all -- Creating generic include file: /usr/include/Bpp/Text.all -- Creating generic include file: /usr/include/Bpp/Utils.all Setting up libmodule-runtime-conflicts-perl (0.003-1) ... Setting up python-avro (1.8.1+dfsg-1) ... Setting up xfonts-utils (1:7.7+4) ... Setting up python-colorama (0.3.7-1) ... Setting up python-alabaster (0.7.8-1) ... Setting up libbpp-phyl-dev (2.2.0-1+b1) ... -- Creating generic include file: /usr/include/Bpp.all -- Creating generic include file: /usr/include/Bpp/App.all -- Creating generic include file: /usr/include/Bpp/Graph.all -- Creating generic include file: /usr/include/Bpp/Graphics.all -- Creating generic include file: /usr/include/Bpp/Graphics/Fig.all -- Creating generic include file: /usr/include/Bpp/Graphics/Font.all -- Creating generic include file: /usr/include/Bpp/Graphics/Latex.all -- Creating generic include file: /usr/include/Bpp/Graphics/Molscript.all -- Creating generic include file: /usr/include/Bpp/Graphics/R.all -- Creating generic include file: /usr/include/Bpp/Graphics/Svg.all -- Creating generic include file: /usr/include/Bpp/Io.all -- Creating generic include file: /usr/include/Bpp/Numeric.all -- Creating generic include file: /usr/include/Bpp/Numeric/Function.all -- Creating generic include file: /usr/include/Bpp/Numeric/Hmm.all -- Creating generic include file: /usr/include/Bpp/Numeric/Matrix.all -- Creating generic include file: /usr/include/Bpp/Numeric/Prob.all -- Creating generic include file: /usr/include/Bpp/Numeric/Random.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat/Mva.all -- Creating generic include file: /usr/include/Bpp/Phyl.all -- Creating generic include file: /usr/include/Bpp/Phyl/App.all -- Creating generic include file: /usr/include/Bpp/Phyl/Distance.all -- Creating generic include file: /usr/include/Bpp/Phyl/Graphics.all -- Creating generic include file: /usr/include/Bpp/Phyl/Io.all -- Creating generic include file: /usr/include/Bpp/Phyl/Likelihood.all -- Creating generic include file: /usr/include/Bpp/Phyl/Mapping.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Codon.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/FrequenciesSet.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Nucleotide.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Protein.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/RateDistribution.all -- Creating generic include file: /usr/include/Bpp/Phyl/Parsimony.all -- Creating generic include file: /usr/include/Bpp/Phyl/Simulation.all -- Creating generic include file: /usr/include/Bpp/PopGen.all -- Creating generic include file: /usr/include/Bpp/Qt.all -- Creating generic include file: /usr/include/Bpp/Qt/Tree.all -- Creating generic include file: /usr/include/Bpp/Raa.all -- Creating generic include file: /usr/include/Bpp/Seq.all -- Creating generic include file: /usr/include/Bpp/Seq/Alphabet.all -- Creating generic include file: /usr/include/Bpp/Seq/AlphabetIndex.all -- Creating generic include file: /usr/include/Bpp/Seq/App.all -- Creating generic include file: /usr/include/Bpp/Seq/Container.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gff.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gtf.all -- Creating generic include file: /usr/include/Bpp/Seq/GeneticCode.all -- Creating generic include file: /usr/include/Bpp/Seq/Io.all -- Creating generic include file: /usr/include/Bpp/Seq/Io/Maf.all -- Creating generic include file: /usr/include/Bpp/Text.all -- Creating generic include file: /usr/include/Bpp/Utils.all Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Setting up libqt4-sql:amd64 (4:4.8.7+dfsg-11) ... Setting up librdmacm1 (1.1.0-2) ... Setting up gcc (4:6.3.0-4) ... Setting up libkdf5-2 (2.8.1+dfsg-2) ... Setting up libarmadillo7 (1:7.600.2+dfsg-2) ... Setting up python-pkg-resources (33.1.1-1) ... Setting up idba (1.1.3-1) ... Setting up libima-dbi-perl (0.35-2) ... Setting up python-roman (2.0.0-2) ... Setting up libbpp-phyl-omics1v5 (2.2.0-2) ... Setting up libinput-bin (1.6.3-1) ... Setting up libxkbcommon-x11-0:amd64 (0.7.1-2~deb9u1) ... Setting up sra-toolkit (2.8.1-2+dfsg-2) ... Setting up libxmuu1:amd64 (2:1.1.2-2) ... Setting up python-markupsafe (0.23-3) ... Setting up python-numpy (1:1.12.1-3) ... Setting up cython (0.25.2-1) ... Setting up bowtie2 (2.3.0-2) ... Setting up libcgi-fast-perl (1:2.12-1) ... Setting up libhtml-tree-perl (5.03-2) ... Setting up python-tables-lib (3.3.0-5) ... Setting up swi-prolog-nox (7.2.3+dfsg-6) ... update-alternatives: using /usr/bin/swipl to provide /usr/bin/prolog (prolog) in auto mode Setting up libparams-validate-perl (1.26-1) ... Setting up libxcb-sync1:amd64 (1.12-1) ... Setting up libsoftware-license-perl (0.103012-1) ... Setting up libbio-coordinate-perl (1.7.1-1) ... Setting up libfreehep-export-java (2.1.1-3) ... Setting up kissplice (2.4.0-p1-1) ... Setting up python-ipython-genutils (0.1.0-2) ... Setting up python-gobject-2 (2.28.6-13) ... Setting up libsndfile1:amd64 (1.0.27-3) ... Setting up python-configparser (3.3.0r2-2) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up python-cffi-backend (1.9.1-2) ... Setting up libwacom-bin (0.22-1+b1) ... Setting up libbpp-raa-dev (2.2.0-2) ... -- Creating generic include file: /usr/include/Bpp.all -- Creating generic include file: /usr/include/Bpp/App.all -- Creating generic include file: /usr/include/Bpp/Graph.all -- Creating generic include file: /usr/include/Bpp/Graphics.all -- Creating generic include file: /usr/include/Bpp/Graphics/Fig.all -- Creating generic include file: /usr/include/Bpp/Graphics/Font.all -- Creating generic include file: /usr/include/Bpp/Graphics/Latex.all -- Creating generic include file: /usr/include/Bpp/Graphics/Molscript.all -- Creating generic include file: /usr/include/Bpp/Graphics/R.all -- Creating generic include file: /usr/include/Bpp/Graphics/Svg.all -- Creating generic include file: /usr/include/Bpp/Io.all -- Creating generic include file: /usr/include/Bpp/Numeric.all -- Creating generic include file: /usr/include/Bpp/Numeric/Function.all -- Creating generic include file: /usr/include/Bpp/Numeric/Hmm.all -- Creating generic include file: /usr/include/Bpp/Numeric/Matrix.all -- Creating generic include file: /usr/include/Bpp/Numeric/Prob.all -- Creating generic include file: /usr/include/Bpp/Numeric/Random.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat/Mva.all -- Creating generic include file: /usr/include/Bpp/Phyl.all -- Creating generic include file: /usr/include/Bpp/Phyl/App.all -- Creating generic include file: /usr/include/Bpp/Phyl/Distance.all -- Creating generic include file: /usr/include/Bpp/Phyl/Graphics.all -- Creating generic include file: /usr/include/Bpp/Phyl/Io.all -- Creating generic include file: /usr/include/Bpp/Phyl/Likelihood.all -- Creating generic include file: /usr/include/Bpp/Phyl/Mapping.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Codon.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/FrequenciesSet.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Nucleotide.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Protein.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/RateDistribution.all -- Creating generic include file: /usr/include/Bpp/Phyl/Parsimony.all -- Creating generic include file: /usr/include/Bpp/Phyl/Simulation.all -- Creating generic include file: /usr/include/Bpp/PopGen.all -- Creating generic include file: /usr/include/Bpp/Qt.all -- Creating generic include file: /usr/include/Bpp/Qt/Tree.all -- Creating generic include file: /usr/include/Bpp/Raa.all -- Creating generic include file: /usr/include/Bpp/Seq.all -- Creating generic include file: /usr/include/Bpp/Seq/Alphabet.all -- Creating generic include file: /usr/include/Bpp/Seq/AlphabetIndex.all -- Creating generic include file: /usr/include/Bpp/Seq/App.all -- Creating generic include file: /usr/include/Bpp/Seq/Container.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gff.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gtf.all -- Creating generic include file: /usr/include/Bpp/Seq/GeneticCode.all -- Creating generic include file: /usr/include/Bpp/Seq/Io.all -- Creating generic include file: /usr/include/Bpp/Seq/Io/Maf.all -- Creating generic include file: /usr/include/Bpp/Text.all -- Creating generic include file: /usr/include/Bpp/Utils.all Setting up python-freecontact (1.1-2+b2) ... Setting up python-six (1.10.0-3) ... Setting up x11proto-xext-dev (7.3.0-1) ... Setting up python-wcwidth (0.1.7+dfsg1-1) ... Setting up maffilter (1.1.0-1+dfsg-2+b2) ... Setting up python-xlrd (1.0.0-1) ... Setting up libfreehep-graphicsio-java (2.1.1-4) ... Setting up python-pygments (2.2.0+dfsg-1) ... Setting up libcassie1v5 (1.0.5-1+b1) ... Setting up python-ptyprocess (0.5.1-1) ... Setting up eigensoft (6.1.4+dfsg-1+b1) ... Setting up python-bs4 (4.5.3-1) ... Setting up python-sortedcontainers (1.5.7-1) ... Setting up libjson-maybexs-perl (1.003008-1) ... Setting up libjpeg-dev (1:1.5.1-2) ... Setting up libqt5xml5:amd64 (5.7.1+dfsg-3+deb9u2) ... Setting up libfreetype6-dev (2.6.3-3.2+deb9u1) ... Setting up libdate-calc-perl (6.4-1) ... Setting up libldap-2.4-2:amd64 (2.4.44+dfsg-5+deb9u4) ... Setting up python-mako (1.0.6+ds1-2) ... Setting up conservation-code (20110309.0-5) ... Setting up python-pandas-lib (0.19.2-5.1) ... Setting up python-sklearn-lib (0.18-5) ... Setting up libxml-filter-buffertext-perl (1.01-5) ... Setting up python-appdirs (1.4.0-3) ... Setting up lefse (1.0+20160802-1) ... Setting up libj2ssh-java (0.2.9-4) ... Setting up libhttp-headers-fast-perl (0.20-1) ... Setting up python-enum34 (1.1.6-1) ... Setting up libace-perl (1.92-4+b1) ... Setting up python-lxml (3.7.1-1) ... Setting up bioperl-run (1.7.1-3) ... Setting up libdata-perl-perl (0.002009-1) ... Setting up libhttp-entity-parser-perl (0.18-1) ... Setting up python-renderpm:amd64 (3.3.0-2+deb9u1) ... Setting up xfonts-100dpi (1:1.0.4+nmu1) ... Setting up libbpp-seq-omics-dev (2.2.0-1) ... -- Creating generic include file: /usr/include/Bpp.all -- Creating generic include file: /usr/include/Bpp/App.all -- Creating generic include file: /usr/include/Bpp/Graph.all -- Creating generic include file: /usr/include/Bpp/Graphics.all -- Creating generic include file: /usr/include/Bpp/Graphics/Fig.all -- Creating generic include file: /usr/include/Bpp/Graphics/Font.all -- Creating generic include file: /usr/include/Bpp/Graphics/Latex.all -- Creating generic include file: /usr/include/Bpp/Graphics/Molscript.all -- Creating generic include file: /usr/include/Bpp/Graphics/R.all -- Creating generic include file: /usr/include/Bpp/Graphics/Svg.all -- Creating generic include file: /usr/include/Bpp/Io.all -- Creating generic include file: /usr/include/Bpp/Numeric.all -- Creating generic include file: /usr/include/Bpp/Numeric/Function.all -- Creating generic include file: /usr/include/Bpp/Numeric/Hmm.all -- Creating generic include file: /usr/include/Bpp/Numeric/Matrix.all -- Creating generic include file: /usr/include/Bpp/Numeric/Prob.all -- Creating generic include file: /usr/include/Bpp/Numeric/Random.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat/Mva.all -- Creating generic include file: /usr/include/Bpp/Phyl.all -- Creating generic include file: /usr/include/Bpp/Phyl/App.all -- Creating generic include file: /usr/include/Bpp/Phyl/Distance.all -- Creating generic include file: /usr/include/Bpp/Phyl/Graphics.all -- Creating generic include file: /usr/include/Bpp/Phyl/Io.all -- Creating generic include file: /usr/include/Bpp/Phyl/Likelihood.all -- Creating generic include file: /usr/include/Bpp/Phyl/Mapping.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Codon.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/FrequenciesSet.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Nucleotide.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Protein.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/RateDistribution.all -- Creating generic include file: /usr/include/Bpp/Phyl/Parsimony.all -- Creating generic include file: /usr/include/Bpp/Phyl/Simulation.all -- Creating generic include file: /usr/include/Bpp/PopGen.all -- Creating generic include file: /usr/include/Bpp/Qt.all -- Creating generic include file: /usr/include/Bpp/Qt/Tree.all -- Creating generic include file: /usr/include/Bpp/Raa.all -- Creating generic include file: /usr/include/Bpp/Seq.all -- Creating generic include file: /usr/include/Bpp/Seq/Alphabet.all -- Creating generic include file: /usr/include/Bpp/Seq/AlphabetIndex.all -- Creating generic include file: /usr/include/Bpp/Seq/App.all -- Creating generic include file: /usr/include/Bpp/Seq/Container.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gff.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gtf.all -- Creating generic include file: /usr/include/Bpp/Seq/GeneticCode.all -- Creating generic include file: /usr/include/Bpp/Seq/Io.all -- Creating generic include file: /usr/include/Bpp/Seq/Io/Maf.all -- Creating generic include file: /usr/include/Bpp/Text.all -- Creating generic include file: /usr/include/Bpp/Utils.all Setting up libfile-listing-perl (6.04-1) ... Setting up libxcomposite1:amd64 (1:0.4.4-2) ... Setting up libcommons-jexl2-java (2.1.1-3) ... Setting up libxcb-shm0:amd64 (1.12-1) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up macs (2.1.1.20160309-1) ... Setting up libxt6:amd64 (1:1.1.5-1) ... Setting up libxcb-shape0:amd64 (1.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libxcb1-dev:amd64 (1.12-1) ... Setting up python-iso8601 (0.1.11-1) ... Setting up libmoo-perl (2.002005-1) ... Setting up libxcb-glx0-dev:amd64 (1.12-1) ... Setting up libhttp-message-perl (6.11-1) ... Setting up g++ (4:6.3.0-4) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up python-statsmodels-lib (0.8.0~rc1+git59-gef47cd9-5) ... Setting up libavahi-client3:amd64 (0.6.32-2) ... Setting up last-align (830-1) ... Setting up libxcb-keysyms1:amd64 (0.4.0-1+b2) ... Setting up libxmlgraphics-commons-java (2.1-2) ... Setting up libkrb5-3:amd64 (1.15-1+deb9u1) ... Setting up libb-hooks-endofscope-perl (0.21-1) ... Setting up python-decorator (4.0.11-1) ... Setting up libgts-bin (0.7.6+darcs121130-4) ... Setting up exim4-daemon-light (4.89-2+deb9u7) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Initializing GnuTLS DH parameter file Setting up python-singledispatch (3.4.0.3-2) ... Setting up tophat (2.1.1+dfsg-2+b2) ... Setting up libxml-libxml-perl (2.0128+dfsg-1+deb9u1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX 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 python-bz2file (0.98-1) ... Setting up libx11-dev:amd64 (2:1.6.4-3+deb9u1) ... Setting up python-antlr (2.7.7+dfsg-7) ... Setting up libsbml5-python (5.13.0+dfsg-1) ... Setting up hisat2 (2.0.5-1) ... Setting up python-subprocess32 (3.2.7-2) ... Setting up libxft2:amd64 (2.3.2-1+b2) ... Setting up python-pathlib2 (2.2.0+really2.1.0-1) ... Setting up python-traitlets (4.3.1-1) ... Setting up libxml-sax-writer-perl (0.56-1) ... Setting up python-ipaddress (1.0.17-1) ... Setting up libplack-perl (1.0042-1) ... Setting up dirmngr (2.1.18-8~deb9u4) ... Setting up dconf-gsettings-backend:amd64 (0.26.0-2+b1) ... Setting up liblist-someutils-perl (0.53-1) ... Setting up python-nose (1.3.7-2) ... Setting up python-pil:amd64 (4.0.0-4+deb9u1) ... Setting up python-mpmath (0.19-3) ... Setting up python-patsy (0.4.1+git34-ga5b54c2-1) ... Setting up libqtdbus4:amd64 (4:4.8.7+dfsg-11) ... Setting up python-rdkit (201603.5-2) ... Setting up libtext-recordparser-perl (1.6.5-1) ... Setting up python-webencodings (0.5-2) ... Setting up python-future (0.15.2-4) ... update-alternatives: using /usr/bin/python2-futurize to provide /usr/bin/futurize (futurize) in auto mode update-alternatives: using /usr/bin/python2-pasteurize to provide /usr/bin/pasteurize (pasteurize) in auto mode Setting up isympy-common (1.0-3) ... Setting up libmems-1.6-dev (1.6.0+4725-4) ... Setting up libclass-dbi-perl (3.0.17-4) ... Setting up python-pbconsensuscore (1.0.2-2) ... Setting up libxcb-sync-dev:amd64 (1.12-1) ... Setting up libaudio2:amd64 (1.9.4-5+b1) ... Setting up fontconfig (2.11.0-6.7+b1) ... Regenerating fonts cache... done. Setting up giira (0.0.20140625-1) ... Setting up libhttp-negotiate-perl (6.00-2) ... Setting up libtest-most-perl (0.35-1) ... Setting up aevol (4.4-1+b4) ... Setting up libaprutil1-ldap:amd64 (1.5.4-3) ... Setting up libegl1-mesa:amd64 (13.0.6-1+b2) ... Setting up lynx (2.8.9dev11-1) ... update-alternatives: using /usr/bin/lynx to provide /usr/bin/www-browser (www-browser) in auto mode Setting up libpackage-stash-perl (0.37-1) ... Setting up libfontconfig1-dev:amd64 (2.11.0-6.7+b1) ... Setting up libpackage-variant-perl (1.003002-1) ... Setting up parsnp (1.2+dfsg-3) ... Setting up gfortran (4:6.3.0-4) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libx11-xcb-dev:amd64 (2:1.6.4-3+deb9u1) ... Setting up rdp-alignment (1.2.0-2) ... Setting up libgstreamer-plugins-base1.0-0:amd64 (1.10.4-1+deb9u1) ... Setting up liblog-dispatch-perl (2.58-1) ... Setting up libmpj-java (0.44+dfsg-3) ... Setting up python-setuptools (33.1.1-1) ... Setting up libkdf5-dev (2.8.1+dfsg-2) ... Setting up python-cobra (0.5.9-1) ... Setting up libxt-dev:amd64 (1:1.1.5-1) ... Setting up libxcb-render-util0:amd64 (0.3.9-1) ... Setting up python-urllib3 (1.19.1-1) ... Setting up python-h5py (2.7.0-1) ... Setting up libmailtools-perl (2.18-1) ... Setting up libbpp-phyl-omics-dev (2.2.0-2) ... -- Creating generic include file: /usr/include/Bpp.all -- Creating generic include file: /usr/include/Bpp/App.all -- Creating generic include file: /usr/include/Bpp/Graph.all -- Creating generic include file: /usr/include/Bpp/Graphics.all -- Creating generic include file: /usr/include/Bpp/Graphics/Fig.all -- Creating generic include file: /usr/include/Bpp/Graphics/Font.all -- Creating generic include file: /usr/include/Bpp/Graphics/Latex.all -- Creating generic include file: /usr/include/Bpp/Graphics/Molscript.all -- Creating generic include file: /usr/include/Bpp/Graphics/R.all -- Creating generic include file: /usr/include/Bpp/Graphics/Svg.all -- Creating generic include file: /usr/include/Bpp/Io.all -- Creating generic include file: /usr/include/Bpp/Numeric.all -- Creating generic include file: /usr/include/Bpp/Numeric/Function.all -- Creating generic include file: /usr/include/Bpp/Numeric/Hmm.all -- Creating generic include file: /usr/include/Bpp/Numeric/Matrix.all -- Creating generic include file: /usr/include/Bpp/Numeric/Prob.all -- Creating generic include file: /usr/include/Bpp/Numeric/Random.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat/Mva.all -- Creating generic include file: /usr/include/Bpp/Phyl.all -- Creating generic include file: /usr/include/Bpp/Phyl/App.all -- Creating generic include file: /usr/include/Bpp/Phyl/Distance.all -- Creating generic include file: /usr/include/Bpp/Phyl/Graphics.all -- Creating generic include file: /usr/include/Bpp/Phyl/Io.all -- Creating generic include file: /usr/include/Bpp/Phyl/Likelihood.all -- Creating generic include file: /usr/include/Bpp/Phyl/Mapping.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Codon.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/FrequenciesSet.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Nucleotide.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Protein.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/RateDistribution.all -- Creating generic include file: /usr/include/Bpp/Phyl/Parsimony.all -- Creating generic include file: /usr/include/Bpp/Phyl/Simulation.all -- Creating generic include file: /usr/include/Bpp/PopGen.all -- Creating generic include file: /usr/include/Bpp/Qt.all -- Creating generic include file: /usr/include/Bpp/Qt/Tree.all -- Creating generic include file: /usr/include/Bpp/Raa.all -- Creating generic include file: /usr/include/Bpp/Seq.all -- Creating generic include file: /usr/include/Bpp/Seq/Alphabet.all -- Creating generic include file: /usr/include/Bpp/Seq/AlphabetIndex.all -- Creating generic include file: /usr/include/Bpp/Seq/App.all -- Creating generic include file: /usr/include/Bpp/Seq/Container.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gff.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gtf.all -- Creating generic include file: /usr/include/Bpp/Seq/GeneticCode.all -- Creating generic include file: /usr/include/Bpp/Seq/Io.all -- Creating generic include file: /usr/include/Bpp/Seq/Io/Maf.all -- Creating generic include file: /usr/include/Bpp/Text.all -- Creating generic include file: /usr/include/Bpp/Utils.all Setting up libgetopt-long-descriptive-perl (0.100-1) ... Setting up python-numexpr (2.6.1-4) ... Setting up libsvg-graph-perl (0.02-2) ... Setting up python-configobj (5.0.6-2) ... Setting up sspace (2.1.1+dfsg-2) ... Setting up libhtml-format-perl (2.12-1) ... Setting up python-networkx (1.11-2) ... Setting up libfast5-dev (0.5.8-1) ... Setting up python-biopython (1.68+dfsg-3) ... Setting up python-prompt-toolkit (1.0.9-1) ... Setting up libfreehep-graphicsio-tests-java (2.1.1+dfsg1-4) ... Setting up python-chardet (2.3.0-2) ... Setting up libcommons-configuration-java (1.10-4) ... Setting up seer (1.1.2-3) ... Setting up garlic (1.6-1.1+b2) ... Setting up libxcb-image0:amd64 (0.4.0-1+b2) ... Setting up mesa-common-dev:amd64 (13.0.6-1+b2) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up libxfixes3:amd64 (1:5.0.3-1) ... Setting up python-scipy (0.18.1-2) ... Setting up po-debconf (1.0.20) ... Setting up gsettings-desktop-schemas (3.22.0-1) ... Setting up libmoox-handlesvia-perl (0.001008-2) ... 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Setting up python-babel (2.3.4+dfsg.1-2) ... update-alternatives: using /usr/bin/pybabel-python2 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up gromacs (2016.1-2) ... Setting up libncbi6:amd64 (6.1.20170106+dfsg1-0+deb9u1) ... Setting up libxss1:amd64 (1:1.2.2-1) ... Setting up tcllib (1.18-dfsg-3) ... Setting up x11proto-fixes-dev (1:5.0-2) ... Setting up libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... Setting up libarray-compare-perl (3.0.0-1) ... Setting up python-multipletau (0.1.7+ds-1) ... Setting up ncbi-blast+ (2.6.0-1) ... Setting up libdate-calc-xs-perl (6.4-1+b2) ... Setting up libinput10:amd64 (1.6.3-1) ... Setting up apache2-bin (2.4.25-3+deb9u9) ... Setting up libncbi6-dev:amd64 (6.1.20170106+dfsg1-0+deb9u1) ... Setting up libgd3:amd64 (2.2.4-2+deb9u5) ... Setting up libbatik-java (1.8-4+deb9u2) ... Setting up libxrender-dev:amd64 (1:0.9.10-1) ... Setting up python-dendropy (4.2.0+dfsg-1) ... Setting up pdl (1:2.017-1) ... Setting up gobjc (4:6.3.0-4) ... Setting up libhttp-daemon-perl (6.01-1) ... Setting up libdevel-overloadinfo-perl (0.004-1) ... Setting up python-pexpect (4.2.1-1) ... Setting up metaphlan2-data (2.6.0+ds-2) ... Settings: Output files: "/usr/share/metaphlan2/db_v20/mpa_v20_m200.*.bt2" Line rate: 6 (line is 64 bytes) Lines per side: 1 (side is 64 bytes) Offset rate: 4 (one in 16) FTable chars: 10 Strings: unpacked Max bucket size: default Max bucket size, sqrt multiplier: default Max bucket size, len divisor: 4 Difference-cover sample period: 1024 Endianness: little Actual local endianness: little Sanity checking: disabled Assertions: disabled Random seed: 0 Sizeofs: void*:8, int:4, long:8, size_t:8 Input files DNA, FASTA: /var/lib/metaphlan2-data/markers.fasta Building a SMALL index Reading reference sizes Time reading reference sizes: 00:01:01 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:07 bmax according to bmaxDivN setting: 177889396 Using parameters --bmax 133417047 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 133417047 --dcv 1024 Constructing suffix-array element generator Building DifferenceCoverSample Building sPrime Building sPrimeOrder V-Sorting samples V-Sorting samples time: 00:00:31 Allocating rank array Ranking v-sort output Ranking v-sort output time: 00:00:09 Invoking Larsson-Sadakane on ranks Invoking Larsson-Sadakane on ranks time: 00:00:17 Sanity-checking and returning Building samples Reserving space for 12 sample suffixes Generating random suffixes QSorting 12 sample offsets, eliminating duplicates QSorting sample offsets, eliminating duplicates time: 00:00:00 Multikey QSorting 12 samples (Using difference cover) Multikey QSorting samples time: 00:00:00 Calculating bucket sizes Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 7.11558e+08 (target: 133417046) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 1 No samples; assembling all-inclusive block Sorting block of length 711557587 for bucket 1 (Using difference cover) Sorting block time: 00:10:28 Returning block of 711557588 for bucket 1 Exited Ebwt loop fchr[A]: 0 fchr[C]: 193247476 fchr[G]: 355349181 fchr[T]: 534730948 fchr[$]: 711557587 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 304203219 bytes to primary EBWT file: /usr/share/metaphlan2/db_v20/mpa_v20_m200.1.bt2 Wrote 177889404 bytes to secondary EBWT file: /usr/share/metaphlan2/db_v20/mpa_v20_m200.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 711557587 bwtLen: 711557588 sz: 177889397 bwtSz: 177889397 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 44472350 offsSz: 177889400 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 3706030 numLines: 3706030 ebwtTotLen: 237185920 ebwtTotSz: 237185920 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:15:34 Reading reference sizes Time reading reference sizes: 00:00:06 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:06 Time to reverse reference sequence: 00:00:00 bmax according to bmaxDivN setting: 177889396 Using parameters --bmax 133417047 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 133417047 --dcv 1024 Constructing suffix-array element generator Building DifferenceCoverSample Building sPrime Building sPrimeOrder V-Sorting samples V-Sorting samples time: 00:00:31 Allocating rank array Ranking v-sort output Ranking v-sort output time: 00:00:09 Invoking Larsson-Sadakane on ranks Invoking Larsson-Sadakane on ranks time: 00:00:18 Sanity-checking and returning Building samples Reserving space for 12 sample suffixes Generating random suffixes QSorting 12 sample offsets, eliminating duplicates QSorting sample offsets, eliminating duplicates time: 00:00:00 Multikey QSorting 12 samples (Using difference cover) Multikey QSorting samples time: 00:00:00 Calculating bucket sizes Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 7.11558e+08 (target: 133417046) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 1 No samples; assembling all-inclusive block Sorting block of length 711557587 for bucket 1 (Using difference cover) Sorting block time: 00:10:06 Returning block of 711557588 for bucket 1 Exited Ebwt loop fchr[A]: 0 fchr[C]: 193247476 fchr[G]: 355349181 fchr[T]: 534730948 fchr[$]: 711557587 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 304203219 bytes to primary EBWT file: /usr/share/metaphlan2/db_v20/mpa_v20_m200.rev.1.bt2 Wrote 177889404 bytes to secondary EBWT file: /usr/share/metaphlan2/db_v20/mpa_v20_m200.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 711557587 bwtLen: 711557588 sz: 177889397 bwtSz: 177889397 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 44472350 offsSz: 177889400 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 3706030 numLines: 3706030 ebwtTotLen: 237185920 ebwtTotSz: 237185920 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:13:41 Metaphlan2 data are properly created. Setting up python-pytest (3.0.6-1) ... Setting up libsql-translator-perl (0.11021-1) ... Setting up python-biom-format (2.1.5+dfsg-7) ... Setting up libgd-perl (2.53-3) ... Setting up libmime-lite-perl (3.030-2) ... Setting up python-cycler (0.10.0-1) ... Setting up python-screed (0.9-2) ... Setting up libxmu6:amd64 (2:1.1.2-2) ... Setting up macsyfinder (1.0.2-3) ... Setting up qdbus (4:4.8.7+dfsg-11) ... Setting up libclass-load-perl (0.23-1) ... Setting up libgssapi-krb5-2:amd64 (1.15-1+deb9u1) ... Setting up xauth (1:1.0.9-1+b2) ... Setting up libhtsjdk-java (2.8.1+dfsg-1) ... Setting up libxcb-dri2-0-dev:amd64 (1.12-1) ... Setting up python-dateutil (2.5.3-2) ... Setting up libpackage-deprecationmanager-perl (0.17-1) ... Setting up libxcb-render0-dev:amd64 (1.12-1) ... Setting up python-imaging (4.0.0-4+deb9u1) ... Setting up fonts-sil-gentiumplus-compact (5.000-2) ... Setting up python-sklearn (0.18-5) ... Setting up cassiopee (1.0.5-1+b1) ... 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Setting up openssh-client (1:7.4p1-10+deb9u7) ... Setting up libdbix-class-perl (0.082840-3) ... Setting up libwmf0.2-7:amd64 (0.2.8.4-10.6) ... Setting up pvm (3.4.6-1+b2) ... update-alternatives: using /usr/bin/rsh to provide /usr/lib/pvm3/bin/rsh (pvm-rsh) in auto mode Setting up libqt4-network:amd64 (4:4.8.7+dfsg-11) ... Setting up libnamespace-autoclean-perl (0.28-1) ... Setting up libxrandr2:amd64 (2:1.5.1-1) ... Setting up sprai (0.9.9.22+dfsg-1) ... Setting up libdbix-class-tree-nestedset-perl (0.10-1) ... Setting up libcups2:amd64 (2.2.1-8+deb9u6) ... Setting up libg20 (0.72-6) ... Setting up libmime-tools-perl (5.508-1) ... Setting up libncbi-vdb-dev (2.8.1+dfsg-2) ... Setting up circos (0.69.4+dfsg-1) ... Setting up libxi6:amd64 (2:1.7.9-1) ... Setting up liblapack-dev (3.7.0-2) ... update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode Setting up libbio-chado-schema-perl (0.20000-1) ... 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Setting up libclass-dbi-abstractsearch-perl (0.07-3) ... Setting up libmagickcore-6.q16-3:amd64 (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up libxdamage1:amd64 (1:1.1.4-2+b3) ... Setting up apache2 (2.4.25-3+deb9u9) ... Enabling module mpm_event. Enabling module authz_core. Enabling module authz_host. Enabling module authn_core. Enabling module auth_basic. Enabling module access_compat. Enabling module authn_file. Enabling module authz_user. Enabling module alias. Enabling module dir. Enabling module autoindex. Enabling module env. Enabling module mime. Enabling module negotiation. Enabling module setenvif. Enabling module filter. Enabling module deflate. Enabling module status. Enabling module reqtimeout. Enabling conf charset. Enabling conf localized-error-pages. Enabling conf other-vhosts-access-log. Enabling conf security. Enabling conf serve-cgi-bin. Enabling site 000-default. info: Executing deferred 'a2enconf javascript-common' for package javascript-common Enabling conf javascript-common. invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up prime-phylo (1.0.11-4+b3) ... Setting up adun-core (0.81-9+b2) ... Setting up libbio-graphics-perl (2.40-1) ... Setting up iqtree (1.5.3+dfsg-2) ... Setting up ncbi-tools-bin (6.1.20170106+dfsg1-0+deb9u1) ... Setting up libxmu-dev:amd64 (2:1.1.2-2) ... Setting up libqt4-designer:amd64 (4:4.8.7+dfsg-11) ... Setting up python-openssl (16.2.0-1) ... Setting up libcurl3:amd64 (7.52.1-5+deb9u10) ... Setting up libxcb-xfixes0-dev:amd64 (1.12-1) ... Setting up libcurl3-gnutls:amd64 (7.52.1-5+deb9u10) ... Setting up libmrm4:amd64 (2.3.4-13) ... Setting up clonalframe (1.2-5) ... Setting up python-ipython (5.1.0-3) ... Setting up libtk8.6:amd64 (8.6.6-1+b1) ... Setting up python-astropy (1.3-8) ... Setting up ffindex (0.9.9.7-3) ... Setting up blast2 (1:2.6.0-1) ... Setting up libqt4-help:amd64 (4:4.8.7+dfsg-11) ... Setting up libcairo-gobject2:amd64 (1.14.8-1) ... Setting up libmoose-perl (2.1807-1) ... Setting up libanfo0 (0.98-5) ... Setting up libsoup2.4-1:amd64 (2.56.0-2+deb9u2) ... Setting up python-pandas (0.19.2-5.1) ... Setting up clustalx (2.1+lgpl-5) ... Setting up libxdamage-dev:amd64 (1:1.1.4-2+b3) ... Setting up ipython (5.1.0-3) ... Setting up rnahybrid (2.1.2-1+b1) ... Setting up libsoup-gnome2.4-1:amd64 (2.56.0-2+deb9u2) ... Setting up libhmsbeagle1v5 (2.1.2+20160831-5) ... Setting up libball1.4 (1.4.3~beta1-3) ... Setting up zalign (0.9.1-2+b3) ... Setting up postgresql-client-9.6 (9.6.17-0+deb9u1) ... update-alternatives: using /usr/share/postgresql/9.6/man/man1/psql.1.gz to provide /usr/share/man/man1/psql.1.gz (psql.1.gz) in auto mode Setting up libdbd-pg-perl (3.5.3-1+b2) ... Setting up libqt4-xmlpatterns:amd64 (4:4.8.7+dfsg-11) ... Setting up libuil4:amd64 (2.3.4-13) ... Setting up xterm (327-2) ... update-alternatives: using /usr/bin/xterm to provide /usr/bin/x-terminal-emulator (x-terminal-emulator) in auto mode update-alternatives: using /usr/bin/lxterm to provide /usr/bin/x-terminal-emulator (x-terminal-emulator) in auto mode Setting up mailutils (1:3.1.1-1) ... update-alternatives: using /usr/bin/frm.mailutils to provide /usr/bin/frm (frm) in auto mode update-alternatives: using /usr/bin/from.mailutils to provide /usr/bin/from (from) in auto mode update-alternatives: using /usr/bin/messages.mailutils to provide /usr/bin/messages (messages) in auto mode update-alternatives: using /usr/bin/movemail.mailutils to provide /usr/bin/movemail (movemail) in auto mode update-alternatives: using /usr/bin/readmsg.mailutils to provide /usr/bin/readmsg (readmsg) in auto mode update-alternatives: using /usr/bin/dotlock.mailutils to provide /usr/bin/dotlock (dotlock) in auto mode update-alternatives: using /usr/bin/mail.mailutils to provide /usr/bin/mailx (mailx) in auto mode Setting up openmpi-bin (2.0.2-2) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode Setting up libqtassistantclient4:amd64 (4.6.3-7+b1) ... Setting up libgraphicsmagick-q16-3 (1.3.30+hg15796-1~deb9u4) ... Setting up libdevel-partialdump-perl (0.18-2) ... Setting up swi-prolog-x (7.2.3+dfsg-6) ... Setting up libxtst6:amd64 (2:1.2.3-1) ... Setting up libhmsbeagle-dev (2.1.2+20160831-5) ... Setting up libpangoft2-1.0-0:amd64 (1.40.5-1) ... Setting up libcupsimage2:amd64 (2.2.1-8+deb9u6) ... Setting up ampliconnoise (1.29-6) ... Setting up libgenome-perl (0.06-3) ... Setting up circos-tools (0.22-1) ... Setting up libpod-readme-perl (1.1.2-1) ... Setting up libgd-graph-perl (1.48-2) ... Setting up swi-prolog (7.2.3+dfsg-6) ... Setting up libgl1-mesa-glx:amd64 (13.0.6-1+b2) ... Setting up libsc7v5 (2.3.1-18+deb9u1) ... Setting up libqt5gui5:amd64 (5.7.1+dfsg-3+deb9u2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-3) ... Setting up emboss (6.6.0+dfsg-6) ... Setting up libqscintilla2-12v5 (2.9.3+dfsg-4) ... Setting up libgl2ps1 (1.3.9-4) ... Setting up populations (1.2.33+svn0120106-2.1+b1) ... Setting up libmagickwand-6.q16-3:amd64 (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up libgenome-model-tools-music-perl (0.04-3) ... Setting up python-cairo (1.8.8-2.2) ... Setting up libfltk1.3:amd64 (1.3.4-4) ... Setting up libglew2.0:amd64 (2.0.0-3+b1) ... Setting up libopenbabel4v5 (2.3.2+dfsg-3) ... Setting up x11-xserver-utils (7.7+7+b1) ... Setting up phyml (3:3.2.0+dfsg-7+b1) ... Setting up tabix (1.3.2-2) ... Setting up libglu1-mesa:amd64 (9.0.0-2.1) ... Setting up isympy (1.0-3) ... Setting up python-pyopencl (2016.1+git20161130-1) ... Setting up librest-0.7-0:amd64 (0.8.0-2) ... Setting up python-ball (1.4.3~beta1-3) ... Setting up libxcb-present-dev:amd64 (1.12-1) ... Setting up metaphlan2 (2.6.0+ds-2) ... Setting up libhmsbeagle-java (2.1.2+20160831-5) ... Setting up libvibrant6b:amd64 (6.1.20170106+dfsg1-0+deb9u1) ... Setting up libfltk-images1.3:amd64 (1.3.4-4) ... Setting up libplot2c2:amd64 (2.6-7) ... Setting up libtheora0:amd64 (1.1.1+dfsg.1-14+b1) ... Setting up libbiococoa-dev (2.2.2-2+b1) ... Setting up libgs9:amd64 (9.26a~dfsg-0+deb9u6) ... Setting up ncbi-tools-x11 (6.1.20170106+dfsg1-0+deb9u1) ... update-alternatives: using /usr/bin/Cn3D-3.0 to provide /usr/bin/Cn3D (Cn3D) in auto mode Setting up fastx-toolkit (0.0.14-3) ... Setting up logol-bin (1.7.5-1) ... Setting up libwww-curl-perl (4.17-4) ... Setting up libqt4-svg:amd64 (4:4.8.7+dfsg-11) ... Setting up blt (2.5.3+dfsg-3) ... Setting up libqt4-scripttools:amd64 (4:4.8.7+dfsg-11) ... Setting up libbpp-qt1v5 (2.2.0-1+b1) ... Setting up mesa-utils (8.3.0-3) ... Setting up chimeraslayer (20101212+dfsg1-1) ... Setting up mpi-default-bin (1.8) ... Setting up microbiomeutil (20101212+dfsg1-1) ... Setting up uil (2.3.4-13) ... Setting up postgresql-client (9.6+181+deb9u3) ... Setting up libhts1:amd64 (1.3.2-2) ... Setting up libgraphicsmagick++-q16-12 (1.3.30+hg15796-1~deb9u4) ... Setting up gstreamer1.0-plugins-base:amd64 (1.10.4-1+deb9u1) ... Setting up freeglut3:amd64 (2.8.1-3) ... Setting up libxerces-c3.1:amd64 (3.1.4+debian-2+deb9u1) ... Setting up libstaden-read11:amd64 (1.14.8-2) ... Setting up libqt4-opengl:amd64 (4:4.8.7+dfsg-11) ... Setting up libqt4-declarative:amd64 (4:4.8.7+dfsg-11) ... Setting up anfo (0.98-5) ... Setting up hyphy-mpi (2.2.7+dfsg-1+b2) ... Setting up tk8.6 (8.6.6-1+b1) ... Setting up hhsuite (3.0~beta2+dfsg-3) ... Setting up libtabixpp0:amd64 (1.0.0-2) ... Setting up libqt5widgets5:amd64 (5.7.1+dfsg-3+deb9u2) ... Setting up librcsb-core-wrapper0 (1.005-4+b3) ... Setting up bio-eagle (2.3-3) ... Setting up salmon (0.7.2+ds1-2+b1) ... Setting up python-opengl (3.1.0+dfsg-1) ... Setting up libfop-java (1:2.1-6) ... Setting up njplot (2.4-7) ... Setting up liboglappth2 (1.0.0-2) ... Setting up curl (7.52.1-5+deb9u10) ... Setting up libqt4-qt3support:amd64 (4:4.8.7+dfsg-11) ... Setting up augustus (3.2.3+dfsg-1) ... Setting up libfltk-gl1.3:amd64 (1.3.4-4) ... Setting up python-corepywrap (1.005-4+b3) ... Setting up libhts-dev:amd64 (1.3.2-2) ... Setting up libclass-dbi-pg-perl (0.09-5) ... Setting up mrbayes (3.2.6+dfsg-1+b4) ... Setting up pymol-data (1.8.4.0+dfsg-1) ... Setting up pp-popularity-contest (1.0.6-2+b4) ... Setting up python-pysam (0.10.0+ds-2) ... Setting up at-spi2-core (2.22.0-6+deb9u1) ... Setting up librcsb-core-wrapper0-dev (1.005-4+b3) ... Setting up hilive (0.3-2) ... Setting up libpangoxft-1.0-0:amd64 (1.40.5-1) ... Setting up nanopolish (0.5.0-1+b1) ... Setting up fastqtl (2.184+dfsg-5) ... Setting up x11-utils (7.7+3+b1) ... Setting up crac (2.5.0+dfsg-1) ... Setting up imagemagick-6.q16 (8:6.9.7.4+dfsg-11+deb9u8) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up libpangocairo-1.0-0:amd64 (1.40.5-1) ... Setting up freecontact (1.0.21-5) ... Setting up ghostscript (9.26a~dfsg-0+deb9u6) ... Setting up fitgcp (0.0.20150429-1) ... Setting up libghemical5v5 (3.0.0-4.1+b3) ... Setting up mpqc (2.3.1-18+deb9u1) ... Setting up libqt5printsupport5:amd64 (5.7.1+dfsg-3+deb9u2) ... Setting up texlive-binaries (2016.20160513.41080.dfsg-2+deb9u1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libpulse0:amd64 (10.0-1+deb9u1) ... Setting up libvcflib-tools (1.0.0~rc1+dfsg1-3) ... Setting up staden-io-lib-utils (1.14.8-2) ... Setting up libqt4-dev-bin (4:4.8.7+dfsg-11) ... Setting up staden-common (2.0.0+b11-2) ... Setting up libcupsfilters1:amd64 (1.11.6-3+deb9u1) ... Setting up qtltools (1.1+dfsg-1) ... Setting up libmagick++-6.q16-7:amd64 (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up libgl1-mesa-dev:amd64 (13.0.6-1+b2) ... Setting up libpstoedit0c2a (3.70-3+b2) ... Setting up genometools-common (1.5.9+ds-4) ... Setting up libgenometools0 (1.5.9+ds-4) ... Setting up tk (8.6.0+9) ... Setting up libmagickcore-6.q16-3-extra:amd64 (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up liboctave3v5:amd64 (4.0.3-3) ... Setting up python-pbcore (1.2.11+dfsg-1) ... Setting up libqt5svg5:amd64 (5.7.1~20161021-2+b2) ... Setting up massxpert (3.6.1-1) ... Setting up python-openbabel (2.3.2+dfsg-3) ... Setting up seaview (1:4.6.1.2-2) ... Setting up maqview (0.2.5-7+b1) ... Setting up imagemagick (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up libpbbam:amd64 (0.7.4+ds-1) ... Setting up ps2eps (1.68+binaryfree-2) ... Setting up ray (2.3.1-4+b1) ... Setting up rna-star (2.5.2b+dfsg-1) ... Setting up samtools (1.3.1-3) ... Setting up libqt4-dev (4:4.8.7+dfsg-11) ... Setting up python-tk (2.7.13-1) ... Setting up libatk-wrapper-java (0.33.3-13+deb9u1) ... Setting up bcftools (1.3.1-1+b1) ... Setting up libbio-scf-perl (1.03-3) ... Setting up libstaden-read-dev (1.14.8-2) ... Setting up srst2 (0.2.0-4) ... Setting up python-qt4 (4.11.4+dfsg-2+b1) ... Setting up libmotif-dev:amd64 (2.3.4-13) ... Setting up python-kineticstools (0.6.1+20161222-1) ... Setting up libqtwebkit4:amd64 (2.3.4.dfsg-9.1) ... Setting up python-mpi4py (2.0.0-2.1+deb9u1) ... Setting up spades (3.9.1+dfsg-1) ... Setting up libgenometools0-dev (1.5.9+ds-4) ... Setting up octave (4.0.3-3) ... Setting up kineticstools (0.6.1+20161222-1) ... Setting up python-pbh5tools (0.8.0+dfsg-5) ... Setting up aegean (0.15.2+dfsg-1) ... Setting up libglu1-mesa-dev:amd64 (9.0.0-2.1) ... Setting up libtabixpp-dev:amd64 (1.0.0-2) ... Setting up libgvc6 (2.38.0-17) ... Setting up pbbarcode (0.8.0-4) ... Setting up python-pbsuite-utils (15.8.24+dfsg-2) ... Setting up librsvg2-2:amd64 (2.40.16-1+b1) ... Setting up libballview1.4 (1.4.3~beta1-3) ... Setting up libpbbam-dev (0.7.4+ds-1) ... Setting up stacks (1.44-2+b1) ... Setting up raster3d (3.0-3-2+b1) ... Setting up pbh5tools (0.8.0+dfsg-5) ... Setting up libbpp-qt-dev (2.2.0-1+b1) ... -- Creating generic include file: /usr/include/Bpp.all -- Creating generic include file: /usr/include/Bpp/App.all -- Creating generic include file: /usr/include/Bpp/Graph.all -- Creating generic include file: /usr/include/Bpp/Graphics.all -- Creating generic include file: /usr/include/Bpp/Graphics/Fig.all -- Creating generic include file: /usr/include/Bpp/Graphics/Font.all -- Creating generic include file: /usr/include/Bpp/Graphics/Latex.all -- Creating generic include file: /usr/include/Bpp/Graphics/Molscript.all -- Creating generic include file: /usr/include/Bpp/Graphics/R.all -- Creating generic include file: /usr/include/Bpp/Graphics/Svg.all -- Creating generic include file: /usr/include/Bpp/Io.all -- Creating generic include file: /usr/include/Bpp/Numeric.all -- Creating generic include file: /usr/include/Bpp/Numeric/Function.all -- Creating generic include file: /usr/include/Bpp/Numeric/Hmm.all -- Creating generic include file: /usr/include/Bpp/Numeric/Matrix.all -- Creating generic include file: /usr/include/Bpp/Numeric/Prob.all -- Creating generic include file: /usr/include/Bpp/Numeric/Random.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat.all -- Creating generic include file: /usr/include/Bpp/Numeric/Stat/Mva.all -- Creating generic include file: /usr/include/Bpp/Phyl.all -- Creating generic include file: /usr/include/Bpp/Phyl/App.all -- Creating generic include file: /usr/include/Bpp/Phyl/Distance.all -- Creating generic include file: /usr/include/Bpp/Phyl/Graphics.all -- Creating generic include file: /usr/include/Bpp/Phyl/Io.all -- Creating generic include file: /usr/include/Bpp/Phyl/Likelihood.all -- Creating generic include file: /usr/include/Bpp/Phyl/Mapping.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Codon.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/FrequenciesSet.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Nucleotide.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/Protein.all -- Creating generic include file: /usr/include/Bpp/Phyl/Model/RateDistribution.all -- Creating generic include file: /usr/include/Bpp/Phyl/Parsimony.all -- Creating generic include file: /usr/include/Bpp/Phyl/Simulation.all -- Creating generic include file: /usr/include/Bpp/PopGen.all -- Creating generic include file: /usr/include/Bpp/Qt.all -- Creating generic include file: /usr/include/Bpp/Qt/Tree.all -- Creating generic include file: /usr/include/Bpp/Raa.all -- Creating generic include file: /usr/include/Bpp/Seq.all -- Creating generic include file: /usr/include/Bpp/Seq/Alphabet.all -- Creating generic include file: /usr/include/Bpp/Seq/AlphabetIndex.all -- Creating generic include file: /usr/include/Bpp/Seq/App.all -- Creating generic include file: /usr/include/Bpp/Seq/Container.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gff.all -- Creating generic include file: /usr/include/Bpp/Seq/Feature/Gtf.all -- Creating generic include file: /usr/include/Bpp/Seq/GeneticCode.all -- Creating generic include file: /usr/include/Bpp/Seq/Io.all -- Creating generic include file: /usr/include/Bpp/Seq/Io/Maf.all -- Creating generic include file: /usr/include/Bpp/Text.all -- Creating generic include file: /usr/include/Bpp/Utils.all Setting up python-pbgenomicconsensus (2.1.0-1) ... Setting up libvibrant6-dev:amd64 (6.1.20170106+dfsg1-0+deb9u1) ... Setting up r-base-core (3.3.3-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-littler (0.3.1-1) ... Setting up r-cran-listenv (0.6.0-1) ... Setting up rsem (1.2.31+dfsg-1) ... Setting up littler (0.3.1-1) ... Setting up pbbamtools (0.7.4+ds-1) ... Setting up genometools (1.5.9+ds-4) ... Setting up r-cran-nnet (7.3-12-1) ... Setting up r-cran-crayon (1.3.2-1) ... Setting up python-pmw (1.3.2-6) ... Setting up libvcflib-dev (1.0.0~rc1+dfsg1-3) ... Setting up r-cran-polspline (1.1.12-2) ... Setting up r-cran-quadprog (1.5-5-2) ... Setting up r-cran-gtable (0.2.0-1) ... Setting up r-base-dev (3.3.3-1) ... Setting up r-cran-curl (2.3-1) ... Setting up r-cran-maps (3.1.1-1) ... Setting up r-cran-acepack (1.4.1-1) ... Setting up r-bioc-biocgenerics (0.20.0-1) ... Setting up librsvg2-common:amd64 (2.40.16-1+b1) ... Setting up tklib (0.6-3) ... Setting up r-cran-sparsem (1.74-1) ... 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Regenerating '/var/lib/texmf/fmtutil.cnf-TEXLIVEDIST'... done. update-fmtutil has updated the following file(s): /var/lib/texmf/fmtutil.cnf-DEBIAN /var/lib/texmf/fmtutil.cnf-TEXLIVEDIST If you want to activate the changes in the above file(s), you should run fmtutil-sys or fmtutil. Processing triggers for menu (2.1.47+b1) ... Setting up blends-common (0.6.96) ... Setting up med-config (3.0.1) ... Adding group `med' (GID 156) ... Done. Processing triggers for sgml-base (1.29) ... Setting up docutils-common (0.13.1+dfsg-2) ... Processing triggers for tex-common (6.06) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Setting up texlive-pstricks (2016.20170123-5) ... Setting up texlive-latex-extra (2016.20170123-5) ... Setting up prosper (1.00.4+cvs.2007.05.01-4.1) ... Processing triggers for sgml-base (1.29) ... Setting up python-docutils (0.13.1+dfsg-2) ... update-alternatives: using /usr/share/docutils/scripts/python2/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python2/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python-sphinx (1.4.9-2) ... Setting up python3 (3.5.3-1) ... Setting up python3-lxml (3.7.1-1) ... Setting up python3-numpy (1:1.12.1-3) ... Setting up liblwp-protocol-https-perl (6.06-2) ... Setting up python3-six (1.10.0-3) ... Setting up python3-pyparsing (2.1.10+dfsg1-1) ... Setting up python3-cycler (0.10.0-1) ... Setting up python3-pkg-resources (33.1.1-1) ... Setting up python3-xopen (0.1.1-1) ... Setting up python3-bs4 (4.5.3-1) ... Setting up lsb-release (9.20161125) ... Setting up fastaq (3.14.0-1) ... Setting up python3-pandas-lib (0.19.2-5.1) ... Setting up python3-wcwidth (0.1.7+dfsg1-1) ... Setting up python3-cutadapt (1.12-2) ... Setting up python3-pysam (0.10.0+ds-2) ... Setting up python3-ipython-genutils (0.1.0-2) ... Setting up python3-nose (1.3.7-2) ... Setting up python3-fast5 (0.5.8-1+b2) ... Setting up python3-chardet (2.3.0-2) ... Setting up python3-natsort (4.0.3-2) ... Setting up python3-lockfile (1:0.12.2-2) ... Setting up python3-pyvcf (0.6.8-1) ... Setting up python3-urllib3 (1.19.1-1) ... Setting up python3-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Setting up python3-tk:amd64 (3.5.3-1) ... Setting up python3-pymummer (0.10.1-1) ... Setting up python3-dendropy (4.2.0+dfsg-1) ... Setting up libruby2.3:amd64 (2.3.3-1+deb9u8) ... Setting up python3-bz2file (0.98-1) ... Setting up dh-python (2.20170125) ... Setting up python3-decorator (4.0.11-1) ... Setting up python3-traitlets (4.3.1-1) ... Setting up python3-ptyprocess (0.5.1-1) ... Setting up python3-tz (2016.7-0.3) ... Setting up python3-ngs (1.3.0-2) ... Setting up tasksel (3.39) ... Setting up python3-dateutil (2.5.3-2) ... Setting up python3-renderpm:amd64 (3.3.0-2+deb9u1) ... Setting up libwww-perl (6.15-1) ... Setting up openjdk-8-jre-headless:amd64 (8u252-b09-1~deb9u1) ... update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/orbd to provide /usr/bin/orbd (orbd) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/servertool to provide /usr/bin/servertool (servertool) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/tnameserv to provide /usr/bin/tnameserv (tnameserv) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode update-binfmts: warning: jar already enabled in kernel. Setting up python3-screed (0.9-2) ... Setting up python3-jdcal (1.0-1.2~deb9u1) ... Setting up python3-pygments (2.2.0+dfsg-1) ... Setting up python3-yaml (3.12-1) ... Setting up python3-pickleshare (0.7.4-1) ... Setting up dbus-java-bin (2.8-6) ... Setting up ncbi-entrez-direct (6.10.20170123+ds-1) ... Setting up libconcurrent-java (1.3.4-4) ... Setting up python3-pil:amd64 (4.0.0-4+deb9u1) ... Setting up python3-simplegeneric (0.8.1-1) ... Setting up ca-certificates-java (20170929~deb9u3) ... Adding debian:ssl-cert-snakeoil.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G3.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Taiwan_GRCA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G2.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Secure_Global_CA.pem Adding debian:SecureTrust_CA.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GA_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:LuxTrust_Global_Root_2.pem Adding debian:Izenpe.com.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:ISRG_Root_X1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GeoTrust_Universal_CA_2.pem Adding debian:GTS_Root_R4.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R1.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:EE_Certification_Centre_Root_CA.pem Adding debian:EC-ACC.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DST_Root_CA_X3.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certigna.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:ACCVRAIZ1.pem done. Setting up python3-scipy (0.18.1-2) ... Setting up python3-webencodings (0.5-2) ... Setting up python3-prompt-toolkit (1.0.9-1) ... Setting up med-tasks (3.0.1) ... Setting up python3-tables-lib (3.3.0-5) ... Setting up dh-autoreconf (14) ... Setting up libbio-primerdesigner-perl (0.07-5) ... Setting up libapache2-mod-perl2 (2.0.10-2+deb9u1) ... apache2_invoke: Enable module perl invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up python3-pyfaidx (0.4.8.1-1) ... Setting up python3-py (1.4.32-3) ... Setting up libvm-ec2-perl (1.28-2) ... Setting up python3-numexpr (2.6.1-4) ... Setting up sumtrees (4.2.0+dfsg-1) ... Setting up python3-pytest (3.0.6-1) ... Setting up gbrowse (2.56+dfsg-2) ... apache2_invoke: Enable configuration gbrowse invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of reload. Setting up ariba (2.6.1+ds-1) ... Setting up python3-tables (3.3.0-5) ... Setting up ruby2.3 (2.3.3-1+deb9u8) ... Setting up cutadapt (1.12-2) ... Setting up libcgi-emulate-psgi-perl (0.22-1) ... Setting up libtfbs-perl (0.7.0+dfsg-4) ... Setting up python3-reportlab (3.3.0-2+deb9u1) ... Setting up med-bio (3.0.1) ... Setting up dh-strip-nondeterminism (0.034-1) ... Setting up openjdk-8-jre:amd64 (8u252-b09-1~deb9u1) ... update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/policytool to provide /usr/bin/policytool (policytool) in auto mode Setting up med-bio-dev (3.0.1) ... Setting up python3-pexpect (4.2.1-1) ... Setting up ant (1.9.9-1+deb9u1) ... Setting up python3-networkx (1.11-2) ... Setting up libdigest-md5-file-perl (0.08-1) ... Setting up python3-html5lib (0.999999999-1) ... Setting up junit4 (4.12-4) ... Setting up cgview (0.0.20100111-2) ... Setting up libxml-parser-perl (2.44-2+b1) ... Setting up python3-openpyxl (2.3.0-3) ... Setting up python3-requests (2.12.4-1) ... Setting up tasksel-data (3.39) ... Setting up libapache2-reload-perl (0.13-1) ... Setting up libgraph-readwrite-perl (2.09-1) ... Setting up python3-biopython (1.68+dfsg-3) ... Setting up ecopcr (0.5.0+dfsg-1) ... Setting up perlprimer (1.2.3-1) ... Setting up python3-pandas (0.19.2-5.1) ... Setting up khmer:amd64 (2.0+dfsg-10) ... Setting up python3-cachecontrol (0.11.7-1) ... Setting up ruby (1:2.3.3) ... Setting up ruby-threach (0.2.0-1) ... Setting up python3-matplotlib (2.0.0+dfsg1-2) ... Setting up rhino (1.7.7.1-1) ... update-alternatives: using /usr/bin/rhino to provide /usr/bin/js (js) in auto mode Setting up picard-tools (2.8.1+dfsg-1) ... Setting up libcolt-free-java (1.2.0+dfsg-4) ... Setting up ruby-facade (1.0.7-1) ... 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 libbio-das-lite-perl (2.11-5) ... Setting up fop (1:2.1-6) ... Setting up med-statistics (3.0.1) ... Setting up default-jre-headless (2:1.8-58+deb9u1) ... Setting up libjung-free-java (2.0.1+dfsg-1) ... Setting up libapache-dbi-perl (1.12-1) ... Setting up figtree (1.4.2+dfsg-2) ... Setting up debhelper (10.2.5) ... Setting up python3-csb (1.2.3+dfsg-3) ... Setting up icedtea-netx:amd64 (1.6.2-3.1+deb9u1) ... update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/javaws to provide /usr/bin/javaws (javaws) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/itweb-settings to provide /usr/bin/itweb-settings (itweb-settings) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/policyeditor to provide /usr/bin/policyeditor (policyeditor) in auto mode Setting up beast2-mcmc (2.4.4+dfsg-1) ... Setting up beagle (4.1~160727-86a+dfsg-1) ... Setting up libxml-twig-perl (1:3.50-1) ... Setting up iva (1.0.8+ds-1) ... Setting up python3-ipython (5.1.0-3) ... Setting up fastqc (0.11.5+dfsg-6) ... Setting up circlator (1.4.1-1) ... Setting up libsoap-lite-perl (1.20-1) ... Setting up default-jre (2:1.8-58+deb9u1) ... Setting up rake (10.5.0-2+deb9u1) ... Setting up ant-optional (1.9.9-1+deb9u1) ... Setting up libxml-xpath-perl (1.40-1) ... Setting up rdp-classifier (2.10.2-1) ... Setting up neobio (0.0.20030929-2) ... Setting up jaligner (1.0+dfsg-4) ... Setting up libnet-dbus-perl (1.1.0-4+b1) ... Setting up roary (3.8.0+dfsg-1) ... Setting up brig (0.95+dfsg-1) ... Setting up artfastqgenerator (0.0.20150519-2) ... Setting up libxml-perl (0.08-2) ... Setting up ruby-pathname2 (1.8.0-1) ... Setting up libmsv-java (2009.1+dfsg1-5) ... Setting up ruby-bio (1.5.0-2) ... Setting up treeview (1.1.6.4+dfsg1-2) ... Setting up libxmlrpc-lite-perl (0.717-1) ... Setting up ruby-trollop (2.0-2) ... Setting up gubbins (2.2.0-1) ... Setting up trimmomatic (0.36+dfsg-1) ... Setting up libxml-dom-perl (1.44-2) ... Setting up ruby-fixwhich (1.0.2-1) ... Setting up beast-mcmc (1.8.4+dfsg.1-1) ... Setting up libxml-checker-perl (0.13-6) ... Setting up libgraphviz-perl (2.22-1) ... Setting up libdom4j-java (1.6.1+dfsg.3-2+deb9u1) ... Setting up jmol (14.6.4+2016.11.05+dfsg1-3) ... Setting up libbytecode-java (0.92.svn.20090106-2) ... Setting up jemboss (6.6.0+dfsg-6) ... Setting up ruby-crb-blast (0.6.8-1) ... Setting up libgo-perl (0.15-5) ... Setting up metastudent (2.0.1-4) ... Setting up alter-sequence-alignment (1.3.3+dfsg-1) ... Setting up proalign (0.603-2) ... Setting up spread-phy (1.0.7+dfsg-1) ... Setting up ipython3 (5.1.0-3) ... Setting up python3-skbio (0.5.1-2) ... Setting up mhap (2.1.1+dfsg-1) ... Setting up libdbix-dbstag-perl (0.12-2) ... Setting up mipe (1.1-5) ... Setting up jmodeltest (2.1.10+dfsg-5) ... Setting up libbiojava1.7-java (1:1.7.1-5) ... Setting up libbiojava4.0-java (4.2.5+dfsg-1) ... Setting up trinityrnaseq (2.2.0+dfsg-2+b1) ... Setting up libxml-dom-xpath-perl (0.14-2) ... Setting up prottest (3.4.2+dfsg-2) ... Setting up libchado-perl (1.31-3) ... DBI connect('dbname=gmod-chado;host=localhost;port=5432','chado',...) failed: could not connect to server: Connection refused Is the server running on host "localhost" (::1) and accepting TCP/IP connections on port 5432? could not connect to server: Connection refused Is the server running on host "localhost" (127.0.0.1) and accepting TCP/IP connections on port 5432? at /usr/share/perl5/Bio/GMOD/DB/Config.pm line 233. Database access not correctly configured Check your configuration and run manually the database update: cd /usr/share/gmod/chado/ export GMOD_ROOT=/usr/share/gmod/chado export PGPASSFILE=/usr/share/gmod/chado/pgpass For a new installation: make load_schema make prepdb OR make update to upgrade the schema from a previous install Setting up libbiojava-java (1:1.7.1-5) ... Setting up mauve-aligner (2.4.0+4734-3) ... Setting up libbiojava4-java (4.2.5+dfsg-1) ... Setting up chado-utils (1.31-3) ... Setting up artemis (16.0.17+dfsg-1) ... Setting up alien-hunter (1.7-5) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. Processing triggers for libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... Processing triggers for tex-common (6.06) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Processing triggers for menu (2.1.47+b1) ... 59m16.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', '-y', 'install', 'med-all'] 59m16.4s INFO: Running scripts post_install 59m16.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_install_exceptions'] 59m16.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/post_install_exceptions'] 59m16.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpqa226gpy'] 59m26.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpqa226gpy'] 59m27.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpqa226gpy to buster 59m27.1s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 59m27.1s INFO: Running scripts pre_distupgrade 59m27.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 59m27.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 59m27.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_exceptions'] 59m27.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_exceptions'] 59m27.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 59m27.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 59m27.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_zz_database-server'] 59m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_zz_database-server'] 59m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 59m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 59m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', 'update'] 59m32.7s DUMP: Get:1 http://deb.debian.org/debian buster InRelease [122 kB] Get:2 http://deb.debian.org/debian buster/main amd64 Packages [7909 kB] Get:3 http://deb.debian.org/debian buster/main Translation-en [5969 kB] Fetched 14.0 MB in 3s (3785 kB/s) Reading package lists... 59m32.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', 'update'] 59m32.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpqa226gpy', 'apt-get', '-yf', 'dist-upgrade'] Piuparts interrupted by the user, exiting... 80m11.4s DEBUG: kill -15 1554416 80m11.6s DEBUG: kill -15 1299759 80m27.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/proc/sys/fs/binfmt_misc'] 80m27.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/proc/sys/fs/binfmt_misc'] 80m27.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/shm'] 80m27.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/shm'] 80m27.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/console'] 80m27.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/console'] 80m27.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/ptmx'] 80m27.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/ptmx'] 80m27.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/pts'] 80m27.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/dev/pts'] 80m27.9s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/proc'] 80m27.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpqa226gpy/proc'] 80m27.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpqa226gpy'] 80m32.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpqa226gpy'] 80m32.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpqa226gpy 80m32.6s ERROR: piuparts run ends. *** Process KILLED - exceed maximum run time *** ret=-124 End: 2023-04-20 06:37:59 GMT