Start: 2024-03-07 05:42:55 GMT Package: ruby-crb-blast Version: 0.6.9-4 Installed-Size: 52 Maintainer: Debian Ruby Extras Maintainers Architecture: all Depends: ncbi-blast+, ruby | ruby-interpreter, ruby-bio, ruby-fixwhich, ruby-threach, ruby-trollop Description: Run conditional reciprocal best blast Homepage: https://github.com/cboursnell/crb-blast Description-md5: b8694674f553b0ae33fd1ec67da3861a Ruby-Versions: all Section: ruby Priority: optional Filename: pool/main/r/ruby-crb-blast/ruby-crb-blast_0.6.9-4_all.deb Size: 12024 MD5sum: 2104a581b8545f129c2e35c6dc51c56e SHA256: 1d92b86b07f6832624e7a9e7ce343f78b979605e896f7ed7e64386c4a247c801 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 --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye --no-upgrade-test --apt ruby-crb-blast=0.6.9-4 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 1.3.1~202401311821~1.3-2-g28295102 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 --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye --no-upgrade-test --apt ruby-crb-blast=0.6.9-4 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-28-amd64 #1 SMP Debian 5.10.209-2 (2024-01-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpdr19s4_g 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpdr19s4_g 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/proc'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/proc'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpdr19s4_g/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'update'] 0m1.6s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'update'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.5s DUMP: 29fcf27583012b383113cec2bf757015 - 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.5s INFO: Running scripts post_setup 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_dummy_users'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_dummy_users'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_forbid_home'] 0m3.6s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_forbid_home'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_zz_backports'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_setup_zz_backports'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'clean'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'clean'] 0m3.6s DEBUG: Recording chroot state 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.3s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u9 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u8 install ok installed libc6:amd64 libc6 2.31-13+deb11u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u4 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1+deb11u1 install ok installed tzdata tzdata 2024a-0+deb11u1 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-divert', '--list'] 0m4.3s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-divert', '--list'] 0m4.3s INFO: Running scripts is_testable 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/is_testable_uninstallable'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/is_testable_uninstallable'] 0m4.3s INFO: apt-cache does not know about any of the requested packages 0m4.3s INFO: Running scripts pre_test 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_test_exceptions'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_test_exceptions'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_test_root_password'] 0m4.3s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_test_root_password'] 0m4.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m4.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m5.7s DEBUG: No broken symlinks as far as we can find. 0m5.7s INFO: Running scripts pre_install 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_database-server'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_database-server'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_exceptions'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_exceptions'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_extras'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_extras'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m6.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m6.8s DEBUG: No broken symlinks as far as we can find. 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-cache', 'policy'] 0m7.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.9,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-cache', 'policy'] 0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-cache', 'policy', 'ruby-crb-blast'] 0m7.7s DUMP: ruby-crb-blast: Installed: (none) Candidate: 0.6.9-4 Version table: 0.6.9-4 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-cache', 'policy', 'ruby-crb-blast'] 0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', '-y', 'install', 'ruby-crb-blast=0.6.9-4'] 0m30.5s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: amap-align blends-common bzip2 ca-certificates clustalo clustalw dialign-tx dialign-tx-data exonerate file fonts-lato fsa gawk hmmer javascript-common kalign libargtable2-0 libauthen-sasl-perl libbsd0 libclass-inspector-perl libclone-perl libconvert-binhex-perl libdata-dump-perl libdivsufsort3 libedit2 libencode-locale-perl libexpat1 libfcgi-bin libfcgi-perl libfcgi0ldbl libfile-listing-perl libfont-afm-perl libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libglib2.0-data libgomp1 libgpm2 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu67 libidn11 libio-html-perl libio-sessiondata-perl libio-socket-ssl-perl libio-stringy-perl libjs-jquery liblmdb0 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmailtools-perl libmbedcrypto3 libmbedtls12 libmbedx509-0 libmd0 libmime-tools-perl libmpdec3 libmpfr6 libncursesw6 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libossp-uuid-perl libossp-uuid16 libperl5.32 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libruby2.7 libsigsegv2 libsoap-lite-perl libsqlite3-0 libtask-weaken-perl libtimedate-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-simple-perl libxml2 libxmlrpc-lite-perl libyaml-0-2 lynx lynx-common mafft mailcap med-config media-types menu mime-support mummer muscle mustang ncbi-blast+ ncbi-data netbase openssl perl perl-modules-5.32 perl-openssl-defaults poa prank probcons proda python3 python3-minimal python3.9 python3.9-minimal rake readline-common ruby ruby-bio ruby-facade ruby-fixwhich ruby-minitest ruby-net-telnet ruby-pathname2 ruby-power-assert ruby-rubygems ruby-test-unit ruby-threach ruby-trollop ruby-xmlrpc ruby2.7 rubygems-integration sensible-utils shared-mime-info sim4 t-coffee tm-align ucf unzip xdg-user-dirs xz-utils zip Suggested packages: blends-doc bzip2-doc clustalx seaview wise gawk-doc hmmer-doc apache2 | lighttpd | httpd libdigest-hmac-perl libgssapi-perl gdbm-l10n gpm libcrypt-ssleay-perl uuid libapache2-mod-perl2 libmime-lite-perl libnet-jabber-perl libauthen-ntlm-perl libxml-sax-expatxs-perl menu-l10n gksu | kde-cli-tools | ktsuss mustang-testdata perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl blast2 probcons-extra python3-doc python3-tk python3-venv python3.9-venv python3.9-doc binutils binfmt-support readline-doc ri ruby-dev emboss bundler boxshade t-coffee-examples pymol rasmol Recommended packages: blast2 The following NEW packages will be installed: amap-align blends-common bzip2 ca-certificates clustalo clustalw dialign-tx dialign-tx-data exonerate file fonts-lato fsa gawk hmmer javascript-common kalign libargtable2-0 libauthen-sasl-perl libbsd0 libclass-inspector-perl libclone-perl libconvert-binhex-perl libdata-dump-perl libdivsufsort3 libedit2 libencode-locale-perl libexpat1 libfcgi-bin libfcgi-perl libfcgi0ldbl libfile-listing-perl libfont-afm-perl libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libglib2.0-data libgomp1 libgpm2 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu67 libidn11 libio-html-perl libio-sessiondata-perl libio-socket-ssl-perl libio-stringy-perl libjs-jquery liblmdb0 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmailtools-perl libmbedcrypto3 libmbedtls12 libmbedx509-0 libmd0 libmime-tools-perl libmpdec3 libmpfr6 libncursesw6 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libossp-uuid-perl libossp-uuid16 libperl5.32 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libruby2.7 libsigsegv2 libsoap-lite-perl libsqlite3-0 libtask-weaken-perl libtimedate-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-simple-perl libxml2 libxmlrpc-lite-perl libyaml-0-2 lynx lynx-common mafft mailcap med-config media-types menu mime-support mummer muscle mustang ncbi-blast+ ncbi-data netbase openssl perl perl-modules-5.32 perl-openssl-defaults poa prank probcons proda python3 python3-minimal python3.9 python3.9-minimal rake readline-common ruby ruby-bio ruby-crb-blast ruby-facade ruby-fixwhich ruby-minitest ruby-net-telnet ruby-pathname2 ruby-power-assert ruby-rubygems ruby-test-unit ruby-threach ruby-trollop ruby-xmlrpc ruby2.7 rubygems-integration sensible-utils shared-mime-info sim4 t-coffee tm-align ucf unzip xdg-user-dirs xz-utils zip 0 upgraded, 155 newly installed, 0 to remove and 0 not upgraded. Need to get 73.0 MB of archives. After this operation, 330 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 perl-modules-5.32 all 5.32.1-4+deb11u3 [2823 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libgdbm6 amd64 1.19-2 [64.9 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 libgdbm-compat4 amd64 1.19-2 [44.7 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 libperl5.32 amd64 5.32.1-4+deb11u3 [4121 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 perl amd64 5.32.1-4+deb11u3 [293 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 fonts-lato all 2.0-2.1 [2696 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 libmpfr6 amd64 4.1.0-3 [2012 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 gawk amd64 1:5.1.0-1 [605 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get:17 http://deb.debian.org/debian bullseye/main amd64 mailcap all 3.69 [31.7 kB] Get:18 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.66 [10.9 kB] Get:19 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get:20 http://deb.debian.org/debian bullseye/main amd64 libncursesw6 amd64 6.2+20201114-2+deb11u2 [132 kB] Get:21 http://deb.debian.org/debian bullseye/main amd64 libsqlite3-0 amd64 3.34.1-3 [797 kB] Get:22 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get:23 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get:24 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get:25 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get:26 http://deb.debian.org/debian bullseye/main amd64 netbase all 6.3 [19.9 kB] Get:27 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get:28 http://deb.debian.org/debian bullseye/main amd64 bzip2 amd64 1.0.8-4 [49.3 kB] Get:29 http://deb.debian.org/debian bullseye/main amd64 openssl amd64 1.1.1w-0+deb11u1 [859 kB] Get:30 http://deb.debian.org/debian bullseye/main amd64 ca-certificates all 20210119 [158 kB] Get:31 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3+deb11u1 [273 kB] Get:32 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3+deb11u1 [128 kB] Get:33 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3+deb11u1 [69.2 kB] Get:34 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get:35 http://deb.debian.org/debian bullseye/main amd64 xz-utils amd64 5.2.5-2.1~deb11u1 [220 kB] Get:36 http://deb.debian.org/debian bullseye/main amd64 amap-align amd64 2.2+git20080214.600fc29+dfsg-2 [132 kB] Get:37 http://deb.debian.org/debian bullseye/main amd64 menu amd64 2.1.48 [375 kB] Get:38 http://deb.debian.org/debian bullseye/main amd64 blends-common all 0.7.2 [24.7 kB] Get:39 http://deb.debian.org/debian bullseye/main amd64 libargtable2-0 amd64 13-1.1 [17.9 kB] Get:40 http://deb.debian.org/debian bullseye/main amd64 libgomp1 amd64 10.2.1-6 [99.9 kB] Get:41 http://deb.debian.org/debian bullseye/main amd64 clustalo amd64 1.2.4-7 [260 kB] Get:42 http://deb.debian.org/debian bullseye/main amd64 clustalw amd64 2.1+lgpl-7 [282 kB] Get:43 http://deb.debian.org/debian bullseye/main amd64 dialign-tx-data all 1.0.2-13 [871 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 dialign-tx amd64 1.0.2-13 [82.2 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1+deb11u1 [1374 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 exonerate amd64 2.4.0-5 [1616 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 mummer amd64 3.23+dfsg-7 [664 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 fsa amd64 1.15.9+dfsg-6 [700 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 libdivsufsort3 amd64 2.0.1-5 [44.7 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 hmmer amd64 3.3.2+dfsg-1 [1153 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 javascript-common all 11+nmu1 [6260 B] Get:52 http://deb.debian.org/debian bullseye/main amd64 kalign amd64 1:3.3-1+b3 [137 kB] Get:53 http://deb.debian.org/debian bullseye/main amd64 libauthen-sasl-perl all 2.1600-1.1 [45.4 kB] Get:54 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get:55 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1+deb11u1 [108 kB] Get:56 http://deb.debian.org/debian bullseye/main amd64 libclass-inspector-perl all 1.36-1 [19.6 kB] Get:57 http://deb.debian.org/debian bullseye/main amd64 libclone-perl amd64 0.45-1+b1 [15.4 kB] Get:58 http://deb.debian.org/debian bullseye/main amd64 libconvert-binhex-perl all 1.125-1 [30.5 kB] Get:59 http://deb.debian.org/debian bullseye/main amd64 libdata-dump-perl all 1.23-1.1 [27.6 kB] Get:60 http://deb.debian.org/debian bullseye/main amd64 libedit2 amd64 3.1-20191231-2+b1 [96.7 kB] Get:61 http://deb.debian.org/debian bullseye/main amd64 libencode-locale-perl all 1.05-1.1 [13.2 kB] Get:62 http://deb.debian.org/debian bullseye/main amd64 libfcgi0ldbl amd64 2.4.2-2 [26.1 kB] Get:63 http://deb.debian.org/debian bullseye/main amd64 libfcgi-bin amd64 2.4.2-2 [12.9 kB] Get:64 http://deb.debian.org/debian bullseye/main amd64 libfcgi-perl amd64 0.79+ds-2 [27.6 kB] Get:65 http://deb.debian.org/debian bullseye/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:66 http://deb.debian.org/debian bullseye/main amd64 libhttp-date-perl all 6.05-1 [10.4 kB] Get:67 http://deb.debian.org/debian bullseye/main amd64 libfile-listing-perl all 6.14-1 [12.4 kB] Get:68 http://deb.debian.org/debian bullseye/main amd64 libfont-afm-perl all 1.20-3 [14.0 kB] Get:69 http://deb.debian.org/debian bullseye/main amd64 libquadmath0 amd64 10.2.1-6 [145 kB] Get:70 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:71 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-data all 2.66.8-1+deb11u1 [1177 kB] Get:72 http://deb.debian.org/debian bullseye/main amd64 libgpm2 amd64 1.20.7-8 [35.6 kB] Get:73 http://deb.debian.org/debian bullseye/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB] Get:74 http://deb.debian.org/debian bullseye/main amd64 liburi-perl all 5.08-1 [90.6 kB] Get:75 http://deb.debian.org/debian bullseye/main amd64 libhtml-parser-perl amd64 3.75-1+b1 [105 kB] Get:76 http://deb.debian.org/debian bullseye/main amd64 libio-html-perl all 1.004-2 [16.1 kB] Get:77 http://deb.debian.org/debian bullseye/main amd64 liblwp-mediatypes-perl all 6.04-1 [19.9 kB] Get:78 http://deb.debian.org/debian bullseye/main amd64 libhttp-message-perl all 6.28-1 [79.6 kB] Get:79 http://deb.debian.org/debian bullseye/main amd64 libhtml-form-perl all 6.07-1 [22.9 kB] Get:80 http://deb.debian.org/debian bullseye/main amd64 libhtml-tree-perl all 5.07-2 [213 kB] Get:81 http://deb.debian.org/debian bullseye/main amd64 libhtml-format-perl all 2.12-1.1 [43.8 kB] Get:82 http://deb.debian.org/debian bullseye/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get:83 http://deb.debian.org/debian bullseye/main amd64 libhttp-daemon-perl all 6.12-1+deb11u1 [23.4 kB] Get:84 http://deb.debian.org/debian bullseye/main amd64 libhttp-negotiate-perl all 6.01-1 [12.8 kB] Get:85 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get:86 http://deb.debian.org/debian bullseye/main amd64 libidn11 amd64 1.33-3 [116 kB] Get:87 http://deb.debian.org/debian bullseye/main amd64 libio-sessiondata-perl all 1.03-1.1 [5984 B] Get:88 http://deb.debian.org/debian bullseye/main amd64 perl-openssl-defaults amd64 5 [7360 B] Get:89 http://deb.debian.org/debian bullseye/main amd64 libnet-ssleay-perl amd64 1.88-3+b1 [321 kB] Get:90 http://deb.debian.org/debian bullseye/main amd64 libio-socket-ssl-perl all 2.069-1 [215 kB] Get:91 http://deb.debian.org/debian bullseye/main amd64 libio-stringy-perl all 2.111-3 [56.5 kB] Get:92 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get:93 http://deb.debian.org/debian bullseye/main amd64 liblmdb0 amd64 0.9.24-1 [45.0 kB] Get:94 http://deb.debian.org/debian bullseye/main amd64 libnet-http-perl all 6.20-1 [25.1 kB] Get:95 http://deb.debian.org/debian bullseye/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:96 http://deb.debian.org/debian bullseye/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:97 http://deb.debian.org/debian bullseye/main amd64 libwww-perl all 6.52-1 [192 kB] Get:98 http://deb.debian.org/debian bullseye/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get:99 http://deb.debian.org/debian bullseye/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:100 http://deb.debian.org/debian bullseye/main amd64 libmailtools-perl all 2.21-1 [95.5 kB] Get:101 http://deb.debian.org/debian bullseye/main amd64 libmbedcrypto3 amd64 2.16.9-0.1 [219 kB] Get:102 http://deb.debian.org/debian bullseye/main amd64 libmbedx509-0 amd64 2.16.9-0.1 [109 kB] Get:103 http://deb.debian.org/debian bullseye/main amd64 libmbedtls12 amd64 2.16.9-0.1 [139 kB] Get:104 http://deb.debian.org/debian bullseye/main amd64 libmime-tools-perl all 5.509-1 [212 kB] Get:105 http://deb.debian.org/debian bullseye/main amd64 libossp-uuid16 amd64 1.6.2-1.5+b9 [37.9 kB] Get:106 http://deb.debian.org/debian bullseye/main amd64 libossp-uuid-perl amd64 1.6.2-1.5+b9 [28.8 kB] Get:107 http://deb.debian.org/debian bullseye/main amd64 rubygems-integration all 1.18 [6704 B] Get:108 http://deb.debian.org/debian bullseye/main amd64 ruby2.7 amd64 2.7.4-1+deb11u1 [747 kB] Get:109 http://deb.debian.org/debian bullseye/main amd64 ruby-rubygems all 3.2.5-2 [281 kB] Get:110 http://deb.debian.org/debian bullseye/main amd64 ruby amd64 1:2.7+2 [11.7 kB] Get:111 http://deb.debian.org/debian bullseye/main amd64 rake all 13.0.3-1 [84.7 kB] Get:112 http://deb.debian.org/debian bullseye/main amd64 ruby-minitest all 5.13.0-1 [57.3 kB] Get:113 http://deb.debian.org/debian bullseye/main amd64 ruby-net-telnet all 0.1.1-2 [12.5 kB] Get:114 http://deb.debian.org/debian bullseye/main amd64 ruby-power-assert all 1.1.7-2 [11.5 kB] Get:115 http://deb.debian.org/debian bullseye/main amd64 ruby-test-unit all 3.3.9-1 [86.1 kB] Get:116 http://deb.debian.org/debian bullseye/main amd64 ruby-xmlrpc all 0.3.0-2 [23.7 kB] Get:117 http://deb.debian.org/debian bullseye/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:118 http://deb.debian.org/debian bullseye/main amd64 libruby2.7 amd64 2.7.4-1+deb11u1 [4202 kB] Get:119 http://deb.debian.org/debian bullseye/main amd64 libtask-weaken-perl all 1.06-1 [9252 B] Get:120 http://deb.debian.org/debian bullseye/main amd64 libxml-parser-perl amd64 2.46-2 [206 kB] Get:121 http://deb.debian.org/debian bullseye/main amd64 libsoap-lite-perl all 1.27-1 [258 kB] Get:122 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7+deb11u4 [693 kB] Get:123 http://deb.debian.org/debian bullseye/main amd64 libxml-namespacesupport-perl all 1.12-1.1 [14.9 kB] Get:124 http://deb.debian.org/debian bullseye/main amd64 libxml-sax-base-perl all 1.09-1.1 [20.7 kB] Get:125 http://deb.debian.org/debian bullseye/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:126 http://deb.debian.org/debian bullseye/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2+b1 [337 kB] Get:127 http://deb.debian.org/debian bullseye/main amd64 libxml-sax-expat-perl all 0.51-1 [12.0 kB] Get:128 http://deb.debian.org/debian bullseye/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:129 http://deb.debian.org/debian bullseye/main amd64 libxmlrpc-lite-perl all 0.717-4 [22.6 kB] Get:130 http://deb.debian.org/debian bullseye/main amd64 lynx-common all 2.9.0dev.6-3~deb11u1 [1192 kB] Get:131 http://deb.debian.org/debian bullseye/main amd64 lynx amd64 2.9.0dev.6-3~deb11u1 [652 kB] Get:132 http://deb.debian.org/debian bullseye/main amd64 mafft amd64 7.475-1 [1051 kB] Get:133 http://deb.debian.org/debian bullseye/main amd64 med-config all 3.7 [21.6 kB] Get:134 http://deb.debian.org/debian bullseye/main amd64 muscle amd64 1:3.8.1551-2 [245 kB] Get:135 http://deb.debian.org/debian bullseye/main amd64 mustang amd64 3.2.3-4 [105 kB] Get:136 http://deb.debian.org/debian bullseye/main amd64 ncbi-data all 6.1.20170106+dfsg1-9 [3556 kB] Get:137 http://deb.debian.org/debian bullseye/main amd64 ncbi-blast+ amd64 2.11.0+ds-1 [11.3 MB] Get:138 http://deb.debian.org/debian bullseye/main amd64 poa amd64 2.0+20060928-8 [53.2 kB] Get:139 http://deb.debian.org/debian bullseye/main amd64 prank amd64 0.0.170427+dfsg-3 [395 kB] Get:140 http://deb.debian.org/debian bullseye/main amd64 probcons amd64 1.12-13 [119 kB] Get:141 http://deb.debian.org/debian bullseye/main amd64 proda amd64 1.0-13 [64.9 kB] Get:142 http://deb.debian.org/debian bullseye/main amd64 ruby-bio all 2.0.1-2 [648 kB] Get:143 http://deb.debian.org/debian bullseye/main amd64 ruby-facade all 1.2.1-1 [8996 B] Get:144 http://deb.debian.org/debian bullseye/main amd64 ruby-pathname2 all 1.8.2-2 [17.9 kB] Get:145 http://deb.debian.org/debian bullseye/main amd64 ruby-fixwhich all 1.0.2-2 [4284 B] Get:146 http://deb.debian.org/debian bullseye/main amd64 ruby-threach all 0.2.0-2 [5320 B] Get:147 http://deb.debian.org/debian bullseye/main amd64 ruby-trollop all 2.0-2.1 [17.0 kB] Get:148 http://deb.debian.org/debian bullseye/main amd64 ruby-crb-blast all 0.6.9-4 [12.0 kB] Get:149 http://deb.debian.org/debian bullseye/main amd64 shared-mime-info amd64 2.0-1 [701 kB] Get:150 http://deb.debian.org/debian bullseye/main amd64 sim4 amd64 0.0.20121010-8 [359 kB] Get:151 http://deb.debian.org/debian bullseye/main amd64 t-coffee amd64 13.41.0.28bdc39+dfsg-4 [1003 kB] Get:152 http://deb.debian.org/debian bullseye/main amd64 tm-align amd64 20190822+dfsg-2 [865 kB] Get:153 http://deb.debian.org/debian bullseye/main amd64 unzip amd64 6.0-26+deb11u1 [172 kB] Get:154 http://deb.debian.org/debian bullseye/main amd64 xdg-user-dirs amd64 0.17-2 [53.8 kB] Get:155 http://deb.debian.org/debian bullseye/main amd64 zip amd64 3.0-12 [232 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 73.0 MB in 1s (65.1 MB/s) Selecting previously unselected package perl-modules-5.32. 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Unpacking libwww-perl (6.52-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../073-liblwp-protocol-https-perl_6.10-1_all.deb ... Unpacking liblwp-protocol-https-perl (6.10-1) ... Selecting previously unselected package libnet-smtp-ssl-perl. Preparing to unpack .../074-libnet-smtp-ssl-perl_1.04-1_all.deb ... Unpacking libnet-smtp-ssl-perl (1.04-1) ... Selecting previously unselected package libmailtools-perl. Preparing to unpack .../075-libmailtools-perl_2.21-1_all.deb ... Unpacking libmailtools-perl (2.21-1) ... Selecting previously unselected package libmbedcrypto3:amd64. Preparing to unpack .../076-libmbedcrypto3_2.16.9-0.1_amd64.deb ... Unpacking libmbedcrypto3:amd64 (2.16.9-0.1) ... Selecting previously unselected package libmbedx509-0:amd64. Preparing to unpack .../077-libmbedx509-0_2.16.9-0.1_amd64.deb ... Unpacking libmbedx509-0:amd64 (2.16.9-0.1) ... Selecting previously unselected package libmbedtls12:amd64. 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Selecting previously unselected package ruby-rubygems. Preparing to unpack .../084-ruby-rubygems_3.2.5-2_all.deb ... Unpacking ruby-rubygems (3.2.5-2) ... Selecting previously unselected package ruby. Preparing to unpack .../085-ruby_1%3a2.7+2_amd64.deb ... Unpacking ruby (1:2.7+2) ... Selecting previously unselected package rake. Preparing to unpack .../086-rake_13.0.3-1_all.deb ... Unpacking rake (13.0.3-1) ... Selecting previously unselected package ruby-minitest. Preparing to unpack .../087-ruby-minitest_5.13.0-1_all.deb ... Unpacking ruby-minitest (5.13.0-1) ... Selecting previously unselected package ruby-net-telnet. Preparing to unpack .../088-ruby-net-telnet_0.1.1-2_all.deb ... Unpacking ruby-net-telnet (0.1.1-2) ... Selecting previously unselected package ruby-power-assert. Preparing to unpack .../089-ruby-power-assert_1.1.7-2_all.deb ... Unpacking ruby-power-assert (1.1.7-2) ... Selecting previously unselected package ruby-test-unit. Preparing to unpack .../090-ruby-test-unit_3.3.9-1_all.deb ... Unpacking ruby-test-unit (3.3.9-1) ... Selecting previously unselected package ruby-xmlrpc. Preparing to unpack .../091-ruby-xmlrpc_0.3.0-2_all.deb ... Unpacking ruby-xmlrpc (0.3.0-2) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../092-libyaml-0-2_0.2.2-1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.2-1) ... Selecting previously unselected package libruby2.7:amd64. Preparing to unpack .../093-libruby2.7_2.7.4-1+deb11u1_amd64.deb ... Unpacking libruby2.7:amd64 (2.7.4-1+deb11u1) ... Selecting previously unselected package libtask-weaken-perl. Preparing to unpack .../094-libtask-weaken-perl_1.06-1_all.deb ... Unpacking libtask-weaken-perl (1.06-1) ... Selecting previously unselected package libxml-parser-perl:amd64. Preparing to unpack .../095-libxml-parser-perl_2.46-2_amd64.deb ... Unpacking libxml-parser-perl:amd64 (2.46-2) ... Selecting previously unselected package libsoap-lite-perl. Preparing to unpack .../096-libsoap-lite-perl_1.27-1_all.deb ... Unpacking libsoap-lite-perl (1.27-1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../097-libxml2_2.9.10+dfsg-6.7+deb11u4_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../098-libxml-namespacesupport-perl_1.12-1.1_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-1.1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../099-libxml-sax-base-perl_1.09-1.1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1.1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../100-libxml-sax-perl_1.02+dfsg-1_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../101-libxml-libxml-perl_2.0134+dfsg-2+b1_amd64.deb ... Unpacking libxml-libxml-perl (2.0134+dfsg-2+b1) ... Selecting previously unselected package libxml-sax-expat-perl. Preparing to unpack .../102-libxml-sax-expat-perl_0.51-1_all.deb ... Unpacking libxml-sax-expat-perl (0.51-1) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../103-libxml-simple-perl_2.25-1_all.deb ... Unpacking libxml-simple-perl (2.25-1) ... Selecting previously unselected package libxmlrpc-lite-perl. Preparing to unpack .../104-libxmlrpc-lite-perl_0.717-4_all.deb ... Unpacking libxmlrpc-lite-perl (0.717-4) ... Selecting previously unselected package lynx-common. Preparing to unpack .../105-lynx-common_2.9.0dev.6-3~deb11u1_all.deb ... Unpacking lynx-common (2.9.0dev.6-3~deb11u1) ... Selecting previously unselected package lynx. Preparing to unpack .../106-lynx_2.9.0dev.6-3~deb11u1_amd64.deb ... Unpacking lynx (2.9.0dev.6-3~deb11u1) ... Selecting previously unselected package mafft. Preparing to unpack .../107-mafft_7.475-1_amd64.deb ... Unpacking mafft (7.475-1) ... Selecting previously unselected package med-config. Preparing to unpack .../108-med-config_3.7_all.deb ... Unpacking med-config (3.7) ... Selecting previously unselected package muscle. Preparing to unpack .../109-muscle_1%3a3.8.1551-2_amd64.deb ... Unpacking muscle (1:3.8.1551-2) ... Selecting previously unselected package mustang. Preparing to unpack .../110-mustang_3.2.3-4_amd64.deb ... Unpacking mustang (3.2.3-4) ... Selecting previously unselected package ncbi-data. Preparing to unpack .../111-ncbi-data_6.1.20170106+dfsg1-9_all.deb ... Unpacking ncbi-data (6.1.20170106+dfsg1-9) ... Selecting previously unselected package ncbi-blast+. Preparing to unpack .../112-ncbi-blast+_2.11.0+ds-1_amd64.deb ... Unpacking ncbi-blast+ (2.11.0+ds-1) ... Selecting previously unselected package poa. Preparing to unpack .../113-poa_2.0+20060928-8_amd64.deb ... Unpacking poa (2.0+20060928-8) ... Selecting previously unselected package prank. Preparing to unpack .../114-prank_0.0.170427+dfsg-3_amd64.deb ... Unpacking prank (0.0.170427+dfsg-3) ... Selecting previously unselected package probcons. Preparing to unpack .../115-probcons_1.12-13_amd64.deb ... Unpacking probcons (1.12-13) ... Selecting previously unselected package proda. Preparing to unpack .../116-proda_1.0-13_amd64.deb ... Unpacking proda (1.0-13) ... Selecting previously unselected package ruby-bio. Preparing to unpack .../117-ruby-bio_2.0.1-2_all.deb ... Unpacking ruby-bio (2.0.1-2) ... Selecting previously unselected package ruby-facade. Preparing to unpack .../118-ruby-facade_1.2.1-1_all.deb ... Unpacking ruby-facade (1.2.1-1) ... Selecting previously unselected package ruby-pathname2. Preparing to unpack .../119-ruby-pathname2_1.8.2-2_all.deb ... Unpacking ruby-pathname2 (1.8.2-2) ... Selecting previously unselected package ruby-fixwhich. Preparing to unpack .../120-ruby-fixwhich_1.0.2-2_all.deb ... Unpacking ruby-fixwhich (1.0.2-2) ... Selecting previously unselected package ruby-threach. Preparing to unpack .../121-ruby-threach_0.2.0-2_all.deb ... Unpacking ruby-threach (0.2.0-2) ... Selecting previously unselected package ruby-trollop. Preparing to unpack .../122-ruby-trollop_2.0-2.1_all.deb ... Unpacking ruby-trollop (2.0-2.1) ... Selecting previously unselected package ruby-crb-blast. Preparing to unpack .../123-ruby-crb-blast_0.6.9-4_all.deb ... Unpacking ruby-crb-blast (0.6.9-4) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../124-shared-mime-info_2.0-1_amd64.deb ... Unpacking shared-mime-info (2.0-1) ... Selecting previously unselected package sim4. Preparing to unpack .../125-sim4_0.0.20121010-8_amd64.deb ... Unpacking sim4 (0.0.20121010-8) ... Selecting previously unselected package t-coffee. Preparing to unpack .../126-t-coffee_13.41.0.28bdc39+dfsg-4_amd64.deb ... Unpacking t-coffee (13.41.0.28bdc39+dfsg-4) ... Selecting previously unselected package tm-align. Preparing to unpack .../127-tm-align_20190822+dfsg-2_amd64.deb ... Unpacking tm-align (20190822+dfsg-2) ... Selecting previously unselected package unzip. Preparing to unpack .../128-unzip_6.0-26+deb11u1_amd64.deb ... Unpacking unzip (6.0-26+deb11u1) ... Selecting previously unselected package xdg-user-dirs. Preparing to unpack .../129-xdg-user-dirs_0.17-2_amd64.deb ... Unpacking xdg-user-dirs (0.17-2) ... Selecting previously unselected package zip. Preparing to unpack .../130-zip_3.0-12_amd64.deb ... Unpacking zip (3.0-12) ... Setting up media-types (4.0.0) ... Setting up liblmdb0:amd64 (0.9.24-1) ... Setting up javascript-common (11+nmu1) ... Setting up ncbi-data (6.1.20170106+dfsg1-9) ... Setting up fonts-lato (2.0-2.1) ... Setting up libgpm2:amd64 (1.20.7-8) ... Setting up ruby-facade (1.2.1-1) ... Setting up probcons (1.12-13) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libfcgi0ldbl:amd64 (2.4.2-2) ... Setting up poa (2.0+20060928-8) ... Setting up xdg-user-dirs (0.17-2) ... Setting up ruby-power-assert (1.1.7-2) ... Setting up libmagic-mgc (1:5.39-3+deb11u1) ... Setting up gawk (1:5.1.0-1) ... Setting up libyaml-0-2:amd64 (0.2.2-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1+deb11u1) ... No schema files found: doing nothing. Setting up unzip (6.0-26+deb11u1) ... Setting up perl-modules-5.32 (5.32.1-4+deb11u3) ... Setting up libsqlite3-0:amd64 (3.34.1-3) ... Setting up libfcgi-bin (2.4.2-2) ... Setting up libmagic1:amd64 (1:5.39-3+deb11u1) ... Setting up perl-openssl-defaults:amd64 (5) ... Setting up file (1:5.39-3+deb11u1) ... Setting up libossp-uuid16:amd64 (1.6.2-1.5+b9) ... Setting up libgomp1:amd64 (10.2.1-6) ... Setting up muscle (1:3.8.1551-2) ... Setting up bzip2 (1.0.8-4) ... Setting up t-coffee (13.41.0.28bdc39+dfsg-4) ... Setting up ruby-minitest (5.13.0-1) ... Setting up zip (3.0-12) ... Setting up kalign (1:3.3-1+b3) ... Setting up libglib2.0-data (2.66.8-1+deb11u1) ... Setting up dialign-tx-data (1.0.2-13) ... Setting up mustang (3.2.3-4) ... Setting up ruby-test-unit (3.3.9-1) ... Setting up libidn11:amd64 (1.33-3) ... Setting up proda (1.0-13) ... Setting up sim4 (0.0.20121010-8) ... Setting up ruby-net-telnet (0.1.1-2) ... Setting up xz-utils (5.2.5-2.1~deb11u1) ... update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode Setting up libquadmath0:amd64 (10.2.1-6) ... Setting up libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Setting up lynx-common (2.9.0dev.6-3~deb11u1) ... Setting up amap-align (2.2+git20080214.600fc29+dfsg-2) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up ruby-pathname2 (1.8.2-2) ... Setting up dialign-tx (1.0.2-13) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up clustalw (2.1+lgpl-7) ... Setting up libmbedcrypto3:amd64 (2.16.9-0.1) ... Setting up netbase (6.3) ... Setting up libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Setting up menu (2.1.48) ... Setting up libdivsufsort3:amd64 (2.0.1-5) ... Setting up openssl (1.1.1w-0+deb11u1) ... Setting up libbsd0:amd64 (0.11.3-1+deb11u1) ... Setting up ruby-xmlrpc (0.3.0-2) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Setting up exonerate (2.4.0-5) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up prank (0.0.170427+dfsg-3) ... Setting up libargtable2-0 (13-1.1) ... Setting up libgdbm6:amd64 (1.19-2) ... Setting up libmbedx509-0:amd64 (2.16.9-0.1) ... Setting up libedit2:amd64 (3.1-20191231-2+b1) ... Setting up libmbedtls12:amd64 (2.16.9-0.1) ... Setting up clustalo (1.2.4-7) ... Setting up tm-align (20190822+dfsg-2) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. Setting up shared-mime-info (2.0-1) ... Setting up libgdbm-compat4:amd64 (1.19-2) ... Setting up ucf (3.0043) ... Setting up libperl5.32:amd64 (5.32.1-4+deb11u3) ... Setting up hmmer (3.3.2+dfsg-1) ... Setting up lynx (2.9.0dev.6-3~deb11u1) ... update-alternatives: using /usr/bin/lynx to provide /usr/bin/www-browser (www-browser) in auto mode Setting up python3.9 (3.9.2-1) ... Setting up python3 (3.9.2-3) ... Setting up rubygems-integration (1.18) ... Setting up perl (5.32.1-4+deb11u3) ... Setting up libdata-dump-perl (1.23-1.1) ... Setting up libio-html-perl (1.004-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up mummer (3.23+dfsg-7) ... Setting up libfcgi-perl:amd64 (0.79+ds-2) ... Setting up mailcap (3.69) ... Setting up liburi-perl (5.08-1) ... Setting up libnet-ssleay-perl (1.88-3+b1) ... Setting up libio-sessiondata-perl (1.03-1.1) ... Setting up libhttp-date-perl (6.05-1) ... Setting up libtask-weaken-perl (1.06-1) ... Setting up libossp-uuid-perl (1.6.2-1.5+b9) ... Setting up libfile-listing-perl (6.14-1) ... Setting up mime-support (3.66) ... Setting up libclass-inspector-perl (1.36-1) ... Setting up libfont-afm-perl (1.20-3) ... Setting up mafft (7.475-1) ... Setting up libclone-perl (0.45-1+b1) ... Setting up libio-stringy-perl (2.111-3) ... Setting up libhtml-tagset-perl (3.20-4) ... Setting up libauthen-sasl-perl (2.1600-1.1) ... Setting up libconvert-binhex-perl (1.125-1) ... Setting up liblwp-mediatypes-perl (6.04-1) ... Setting up libtry-tiny-perl (0.30-1) ... Setting up libxml-namespacesupport-perl (1.12-1.1) ... Setting up libnet-http-perl (6.20-1) ... Setting up libencode-locale-perl (1.05-1.1) ... Setting up fsa (1.15.9+dfsg-6) ... Setting up ncbi-blast+ (2.11.0+ds-1) ... Setting up libxml-sax-base-perl (1.09-1.1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libhtml-parser-perl (3.75-1+b1) ... Setting up libio-socket-ssl-perl (2.069-1) ... Setting up libhttp-message-perl (6.28-1) ... Setting up libhtml-form-perl (6.07-1) ... Setting up libhttp-negotiate-perl (6.01-1) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libhtml-tree-perl (5.07-2) ... Setting up libhtml-format-perl (2.12-1.1) ... Setting up libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up libmailtools-perl (2.21-1) ... Setting up libxml-libxml-perl (2.0134+dfsg-2+b1) ... 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 libhttp-daemon-perl (6.12-1+deb11u1) ... Setting up libmime-tools-perl (5.509-1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up libwww-perl (6.52-1) ... Setting up ruby-rubygems (3.2.5-2) ... Setting up rake (13.0.3-1) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up libxml-parser-perl:amd64 (2.46-2) ... Setting up libruby2.7:amd64 (2.7.4-1+deb11u1) ... Setting up libxml-sax-expat-perl (0.51-1) ... 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 libsoap-lite-perl (1.27-1) ... Setting up ruby2.7 (2.7.4-1+deb11u1) ... Setting up ruby (1:2.7+2) ... Setting up ruby-threach (0.2.0-2) ... Setting up libxmlrpc-lite-perl (0.717-4) ... Setting up ruby-bio (2.0.1-2) ... Setting up ruby-fixwhich (1.0.2-2) ... Setting up ruby-trollop (2.0-2.1) ... Setting up ruby-crb-blast (0.6.9-4) ... Processing triggers for libc-bin (2.31-13+deb11u8) ... Processing triggers for menu (2.1.48) ... Setting up blends-common (0.7.2) ... Setting up med-config (3.7) ... Adding group `med' (GID 150) ... Done. WARNING: tempfile is deprecated; consider using mktemp instead. Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', '-y', 'install', 'ruby-crb-blast=0.6.9-4'] 0m30.5s INFO: Running scripts post_install 0m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_install_exceptions'] 0m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_install_exceptions'] 0m30.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m31.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m33.9s DEBUG: No broken symlinks as far as we can find. 0m34.0s INFO: /bin converted to /usr/bin by /usr merge 0m34.0s INFO: /lib converted to /usr/lib by /usr merge 0m34.0s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m34.0s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m34.0s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m34.0s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m34.0s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m34.0s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m34.0s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m34.0s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m34.0s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m34.0s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m34.0s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m34.0s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m34.0s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m34.0s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m34.0s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m34.0s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m34.0s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m34.0s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m34.0s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m34.0s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m34.0s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m34.0s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m34.0s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m34.0s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m34.0s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m34.0s INFO: /sbin converted to /usr/sbin by /usr merge 0m35.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', '-ac', '--ignore-obsolete'] 0m37.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', '-ac', '--ignore-obsolete'] 0m37.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m37.4s DUMP: 0.15.6 0m37.4s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m37.4s INFO: Running adequate version 0.15.6 now. 0m37.4s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'ruby-crb-blast'] 0m37.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'ruby-crb-blast'] 0m37.5s INFO: Running scripts pre_remove 0m37.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m37.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m37.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m37.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m37.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m40.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m40.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m40.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m40.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m40.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m40.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_exceptions'] 0m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/pre_remove_exceptions'] 0m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m41.1s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed amap-align amap-align 2.2+git20080214.600fc29+dfsg-2 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u9 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed blends-common blends-common 0.7.2 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed bzip2 bzip2 1.0.8-4 install ok installed ca-certificates ca-certificates 20210119 install ok installed clustalo clustalo 1.2.4-7 install ok installed clustalw clustalw 2.1+lgpl-7 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed dialign-tx dialign-tx 1.0.2-13 install ok installed dialign-tx-data dialign-tx-data 1.0.2-13 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed exonerate exonerate 2.4.0-5 install ok installed file file 1:5.39-3+deb11u1 install ok installed findutils findutils 4.8.0-1 install ok installed fonts-lato fonts-lato 2.0-2.1 install ok installed fsa fsa 1.15.9+dfsg-6 install ok installed gawk gawk 1:5.1.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hmmer hmmer 3.3.2+dfsg-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed javascript-common javascript-common 11+nmu1 install ok installed kalign kalign 1:3.3-1+b3 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libargtable2-0 libargtable2-0 13-1.1 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libauthen-sasl-perl libauthen-sasl-perl 2.1600-1.1 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbsd0:amd64 libbsd0 0.11.3-1+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u8 install ok installed libc6:amd64 libc6 2.31-13+deb11u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libclass-inspector-perl libclass-inspector-perl 1.36-1 install ok installed libclone-perl libclone-perl 0.45-1+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libconvert-binhex-perl libconvert-binhex-perl 1.125-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdata-dump-perl libdata-dump-perl 1.23-1.1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libdivsufsort3:amd64 libdivsufsort3 2.0.1-5 install ok installed libedit2:amd64 libedit2 3.1-20191231-2+b1 install ok installed libencode-locale-perl libencode-locale-perl 1.05-1.1 install ok installed libexpat1:amd64 libexpat1 2.2.10-2+deb11u5 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libfcgi-bin libfcgi-bin 2.4.2-2 install ok installed libfcgi-perl:amd64 libfcgi-perl 0.79+ds-2 install ok installed libfcgi0ldbl:amd64 libfcgi0ldbl 2.4.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libfile-listing-perl libfile-listing-perl 6.14-1 install ok installed libfont-afm-perl libfont-afm-perl 1.20-3 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.19-2 install ok installed libgdbm6:amd64 libgdbm6 1.19-2 install ok installed libgfortran5:amd64 libgfortran5 10.2.1-6 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.66.8-1+deb11u1 install ok installed libglib2.0-data libglib2.0-data 2.66.8-1+deb11u1 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u4 install ok installed libgomp1:amd64 libgomp1 10.2.1-6 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgpm2:amd64 libgpm2 1.20.7-8 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libhtml-form-perl libhtml-form-perl 6.07-1 install ok installed libhtml-format-perl libhtml-format-perl 2.12-1.1 install ok installed libhtml-parser-perl libhtml-parser-perl 3.75-1+b1 install ok installed libhtml-tagset-perl libhtml-tagset-perl 3.20-4 install ok installed libhtml-tree-perl libhtml-tree-perl 5.07-2 install ok installed libhttp-cookies-perl libhttp-cookies-perl 6.10-1 install ok installed libhttp-daemon-perl libhttp-daemon-perl 6.12-1+deb11u1 install ok installed libhttp-date-perl libhttp-date-perl 6.05-1 install ok installed libhttp-message-perl libhttp-message-perl 6.28-1 install ok installed libhttp-negotiate-perl libhttp-negotiate-perl 6.01-1 install ok installed libicu67:amd64 libicu67 67.1-7 install ok installed libidn11:amd64 libidn11 1.33-3 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libio-html-perl libio-html-perl 1.004-2 install ok installed libio-sessiondata-perl libio-sessiondata-perl 1.03-1.1 install ok installed libio-socket-ssl-perl libio-socket-ssl-perl 2.069-1 install ok installed libio-stringy-perl libio-stringy-perl 2.111-3 install ok installed libjs-jquery libjs-jquery 3.5.1+dfsg+~3.5.5-7 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblmdb0:amd64 liblmdb0 0.9.24-1 install ok installed liblwp-mediatypes-perl liblwp-mediatypes-perl 6.04-1 install ok installed liblwp-protocol-https-perl liblwp-protocol-https-perl 6.10-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmagic-mgc libmagic-mgc 1:5.39-3+deb11u1 install ok installed libmagic1:amd64 libmagic1 1:5.39-3+deb11u1 install ok installed libmailtools-perl libmailtools-perl 2.21-1 install ok installed libmbedcrypto3:amd64 libmbedcrypto3 2.16.9-0.1 install ok installed libmbedtls12:amd64 libmbedtls12 2.16.9-0.1 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.16.9-0.1 install ok installed libmd0:amd64 libmd0 1.0.3-3 install ok installed libmime-tools-perl libmime-tools-perl 5.509-1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-1 install ok installed libmpfr6:amd64 libmpfr6 4.1.0-3 install ok installed libncursesw6:amd64 libncursesw6 6.2+20201114-2+deb11u2 install ok installed libnet-http-perl libnet-http-perl 6.20-1 install ok installed libnet-smtp-ssl-perl libnet-smtp-ssl-perl 1.04-1 install ok installed libnet-ssleay-perl libnet-ssleay-perl 1.88-3+b1 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libossp-uuid-perl libossp-uuid-perl 1.6.2-1.5+b9 install ok installed libossp-uuid16:amd64 libossp-uuid16 1.6.2-1.5+b9 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libperl5.32:amd64 libperl5.32 5.32.1-4+deb11u3 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.9.2-3 install ok installed libpython3.9-minimal:amd64 libpython3.9-minimal 3.9.2-1 install ok installed libpython3.9-stdlib:amd64 libpython3.9-stdlib 3.9.2-1 install ok installed libquadmath0:amd64 libquadmath0 10.2.1-6 install ok installed libreadline8:amd64 libreadline8 8.1-1 install ok installed libruby2.7:amd64 libruby2.7 2.7.4-1+deb11u1 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsigsegv2:amd64 libsigsegv2 2.13-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libsoap-lite-perl libsoap-lite-perl 1.27-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.34.1-3 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtask-weaken-perl libtask-weaken-perl 1.06-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtimedate-perl libtimedate-perl 2.3300-2 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libtry-tiny-perl libtry-tiny-perl 0.30-1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed liburi-perl liburi-perl 5.08-1 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libwww-perl libwww-perl 6.52-1 install ok installed libwww-robotrules-perl libwww-robotrules-perl 6.02-1 install ok installed libxml-libxml-perl libxml-libxml-perl 2.0134+dfsg-2+b1 install ok installed libxml-namespacesupport-perl libxml-namespacesupport-perl 1.12-1.1 install ok installed libxml-parser-perl:amd64 libxml-parser-perl 2.46-2 install ok installed libxml-sax-base-perl libxml-sax-base-perl 1.09-1.1 install ok installed libxml-sax-expat-perl libxml-sax-expat-perl 0.51-1 install ok installed libxml-sax-perl libxml-sax-perl 1.02+dfsg-1 install ok installed libxml-simple-perl libxml-simple-perl 2.25-1 install ok installed libxml2:amd64 libxml2 2.9.10+dfsg-6.7+deb11u4 install ok installed libxmlrpc-lite-perl libxmlrpc-lite-perl 0.717-4 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.2-1 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed lynx lynx 2.9.0dev.6-3~deb11u1 install ok installed lynx-common lynx-common 2.9.0dev.6-3~deb11u1 install ok installed mafft mafft 7.475-1 install ok installed mailcap mailcap 3.69 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed med-config med-config 3.7 install ok installed media-types media-types 4.0.0 install ok installed menu menu 2.1.48 install ok installed mime-support mime-support 3.66 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed mummer mummer 3.23+dfsg-7 install ok installed muscle muscle 1:3.8.1551-2 install ok installed mustang mustang 3.2.3-4 install ok installed ncbi-blast+ ncbi-blast+ 2.11.0+ds-1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-9 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed netbase netbase 6.3 install ok installed openssl openssl 1.1.1w-0+deb11u1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl perl 5.32.1-4+deb11u3 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed perl-modules-5.32 perl-modules-5.32 5.32.1-4+deb11u3 install ok installed perl-openssl-defaults:amd64 perl-openssl-defaults 5 install ok installed poa poa 2.0+20060928-8 install ok installed prank prank 0.0.170427+dfsg-3 install ok installed probcons probcons 1.12-13 install ok installed proda proda 1.0-13 install ok installed python3 python3 3.9.2-3 install ok installed python3-minimal python3-minimal 3.9.2-3 install ok installed python3.9 python3.9 3.9.2-1 install ok installed python3.9-minimal python3.9-minimal 3.9.2-1 install ok installed rake rake 13.0.3-1 install ok installed readline-common readline-common 8.1-1 install ok installed ruby ruby 1:2.7+2 install ok installed ruby-bio ruby-bio 2.0.1-2 install ok installed ruby-crb-blast ruby-crb-blast 0.6.9-4 install ok installed ruby-facade ruby-facade 1.2.1-1 install ok installed ruby-fixwhich ruby-fixwhich 1.0.2-2 install ok installed ruby-minitest ruby-minitest 5.13.0-1 install ok installed ruby-net-telnet ruby-net-telnet 0.1.1-2 install ok installed ruby-pathname2 ruby-pathname2 1.8.2-2 install ok installed ruby-power-assert ruby-power-assert 1.1.7-2 install ok installed ruby-rubygems ruby-rubygems 3.2.5-2 install ok installed ruby-test-unit ruby-test-unit 3.3.9-1 install ok installed ruby-threach ruby-threach 0.2.0-2 install ok installed ruby-trollop ruby-trollop 2.0-2.1 install ok installed ruby-xmlrpc ruby-xmlrpc 0.3.0-2 install ok installed ruby2.7 ruby2.7 2.7.4-1+deb11u1 install ok installed rubygems-integration rubygems-integration 1.18 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.14 install ok installed shared-mime-info shared-mime-info 2.0-1 install ok installed sim4 sim4 0.0.20121010-8 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed t-coffee t-coffee 13.41.0.28bdc39+dfsg-4 install ok installed tar tar 1.34+dfsg-1+deb11u1 install ok installed tm-align tm-align 20190822+dfsg-2 install ok installed tzdata tzdata 2024a-0+deb11u1 install ok installed ucf ucf 3.0043 install ok installed unzip unzip 6.0-26+deb11u1 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed xdg-user-dirs xdg-user-dirs 0.17-2 install ok installed xz-utils xz-utils 5.2.5-2.1~deb11u1 install ok installed zip zip 3.0-12 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'remove', 'amap-align', 'blends-common', 'bzip2', 'ca-certificates', 'clustalo', 'clustalw', 'dialign-tx', 'dialign-tx-data', 'exonerate', 'file', 'fonts-lato', 'fsa', 'gawk', 'hmmer', 'javascript-common', 'kalign', 'libargtable2-0', 'libauthen-sasl-perl', 'libbsd0:amd64', 'libclass-inspector-perl', 'libclone-perl', 'libconvert-binhex-perl', 'libdata-dump-perl', 'libdivsufsort3:amd64', 'libedit2:amd64', 'libencode-locale-perl', 'libexpat1:amd64', 'libfcgi-bin', 'libfcgi-perl:amd64', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfont-afm-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgpm2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu67:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-stringy-perl', 'libjs-jquery', 'liblmdb0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmd0:amd64', 'libmime-tools-perl', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libperl5.32:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libruby2.7:amd64', 'libsigsegv2:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libtask-weaken-perl', 'libtimedate-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl:amd64', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libyaml-0-2:amd64', 'lynx', 'lynx-common', 'mafft', 'mailcap', 'med-config', 'media-types', 'menu', 'mime-support', 'mummer', 'muscle', 'mustang', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.32', 'perl-openssl-defaults:amd64', 'poa', 'prank', 'probcons', 'proda', 'python3', 'python3-minimal', 'python3.9', 'python3.9-minimal', 'rake', 'readline-common', 'ruby', 'ruby-bio', 'ruby-facade', 'ruby-fixwhich', 'ruby-minitest', 'ruby-net-telnet', 'ruby-pathname2', 'ruby-power-assert', 'ruby-rubygems', 'ruby-test-unit', 'ruby-threach', 'ruby-trollop', 'ruby-xmlrpc', 'ruby2.7', 'rubygems-integration', 'sensible-utils', 'shared-mime-info', 'sim4', 't-coffee', 'tm-align', 'ucf', 'unzip', 'xdg-user-dirs', 'xz-utils', 'zip', 'ruby-crb-blast'] 0m44.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: amap-align blends-common bzip2 ca-certificates clustalo clustalw dialign-tx dialign-tx-data exonerate file fonts-lato fsa gawk hmmer javascript-common kalign libargtable2-0 libauthen-sasl-perl libbsd0 libclass-inspector-perl libclone-perl libconvert-binhex-perl libdata-dump-perl libdivsufsort3 libedit2 libencode-locale-perl libexpat1 libfcgi-bin libfcgi-perl libfcgi0ldbl libfile-listing-perl libfont-afm-perl libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libglib2.0-data libgomp1 libgpm2 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu67 libidn11 libio-html-perl libio-sessiondata-perl libio-socket-ssl-perl libio-stringy-perl libjs-jquery liblmdb0 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmailtools-perl libmbedcrypto3 libmbedtls12 libmbedx509-0 libmd0 libmime-tools-perl libmpdec3 libmpfr6 libncursesw6 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libossp-uuid-perl libossp-uuid16 libperl5.32 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libruby2.7 libsigsegv2 libsoap-lite-perl libsqlite3-0 libtask-weaken-perl libtimedate-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-simple-perl libxml2 libxmlrpc-lite-perl libyaml-0-2 lynx lynx-common mafft mailcap med-config media-types menu mime-support mummer muscle mustang ncbi-blast+ ncbi-data netbase openssl perl perl-modules-5.32 perl-openssl-defaults poa prank probcons proda python3 python3-minimal python3.9 python3.9-minimal rake readline-common ruby ruby-bio ruby-crb-blast ruby-facade ruby-fixwhich ruby-minitest ruby-net-telnet ruby-pathname2 ruby-power-assert ruby-rubygems ruby-test-unit ruby-threach ruby-trollop ruby-xmlrpc ruby2.7 rubygems-integration sensible-utils shared-mime-info sim4 t-coffee tm-align ucf unzip xdg-user-dirs xz-utils zip 0 upgraded, 0 newly installed, 155 to remove and 0 not upgraded. After this operation, 330 MB disk space will be freed. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 15592 files and directories currently installed.) Removing amap-align (2.2+git20080214.600fc29+dfsg-2) ... Removing med-config (3.7) ... Removing blends-common (0.7.2) ... Removing bzip2 (1.0.8-4) ... Removing ruby-crb-blast (0.6.9-4) ... Removing ruby-trollop (2.0-2.1) ... Removing ruby-threach (0.2.0-2) ... Removing libxml-simple-perl (2.25-1) ... Removing libxml-sax-expat-perl (0.51-1) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::Expat with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Removing clustalo (1.2.4-7) ... Removing clustalw (2.1+lgpl-7) ... Removing dialign-tx (1.0.2-13) ... Removing dialign-tx-data (1.0.2-13) ... Removing fsa (1.15.9+dfsg-6) ... Removing exonerate (2.4.0-5) ... Removing file (1:5.39-3+deb11u1) ... Removing fonts-lato (2.0-2.1) ... Removing mummer (3.23+dfsg-7) ... Removing gawk (1:5.1.0-1) ... update-alternatives: using /usr/bin/mawk to provide /usr/bin/awk (awk) in auto mode Removing hmmer (3.3.2+dfsg-1) ... Removing javascript-common (11+nmu1) ... Removing kalign (1:3.3-1+b3) ... Removing libargtable2-0 (13-1.1) ... Removing libauthen-sasl-perl (2.1600-1.1) ... Removing lynx (2.9.0dev.6-3~deb11u1) ... Removing libxmlrpc-lite-perl (0.717-4) ... Removing libsoap-lite-perl (1.27-1) ... Removing libclass-inspector-perl (1.36-1) ... Removing libclone-perl (0.45-1+b1) ... Removing libmime-tools-perl (5.509-1) ... Removing libconvert-binhex-perl (1.125-1) ... Removing libdata-dump-perl (1.23-1.1) ... Removing libdivsufsort3:amd64 (2.0.1-5) ... Removing ncbi-blast+ (2.11.0+ds-1) ... Removing python3 (3.9.2-3) ... Removing python3-minimal (3.9.2-3) ... Removing python3.9 (3.9.2-1) ... Removing python3.9-minimal (3.9.2-1) ... Removing libfcgi-bin (2.4.2-2) ... Removing libfcgi-perl:amd64 (0.79+ds-2) ... Removing libfcgi0ldbl:amd64 (2.4.2-2) ... Removing libhtml-format-perl (2.12-1.1) ... Removing libfont-afm-perl (1.20-3) ... Removing libossp-uuid-perl (1.6.2-1.5+b9) ... Removing mafft (7.475-1) ... Removing libhttp-daemon-perl (6.12-1+deb11u1) ... Removing libmailtools-perl (2.21-1) ... Removing libpython3-stdlib:amd64 (3.9.2-3) ... Removing libpython3.9-stdlib:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing mime-support (3.66) ... Removing mailcap (3.69) ... Removing libxml-libxml-perl (2.0134+dfsg-2+b1) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Unregistering 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 Removing libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::PurePerl with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Removing libxml-sax-base-perl (1.09-1.1) ... Removing tm-align (20190822+dfsg-2) ... Removing libgfortran5:amd64 (10.2.1-6) ... Removing shared-mime-info (2.0-1) ... Removing libglib2.0-0:amd64 (2.66.8-1+deb11u1) ... Removing libglib2.0-data (2.66.8-1+deb11u1) ... Removing libgomp1:amd64 (10.2.1-6) ... Removing libgpm2:amd64 (1.20.7-8) ... Removing libhtml-form-perl (6.07-1) ... Removing libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Removing libicu67:amd64 (67.1-7) ... Removing libidn11:amd64 (1.33-3) ... Removing libio-sessiondata-perl (1.03-1.1) ... Removing libnet-smtp-ssl-perl (1.04-1) ... Removing libio-stringy-perl (2.111-3) ... Removing libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Removing liblmdb0:amd64 (0.9.24-1) ... Removing libmagic1:amd64 (1:5.39-3+deb11u1) ... Removing libmagic-mgc (1:5.39-3+deb11u1) ... Removing libmbedtls12:amd64 (2.16.9-0.1) ... Removing libmbedx509-0:amd64 (2.16.9-0.1) ... Removing libmbedcrypto3:amd64 (2.16.9-0.1) ... Removing libmpdec3:amd64 (2.5.1-1) ... Removing libmpfr6:amd64 (4.1.0-3) ... Removing libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Removing libossp-uuid16:amd64 (1.6.2-1.5+b9) ... Removing libpython3.9-minimal:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libquadmath0:amd64 (10.2.1-6) ... Removing libreadline8:amd64 (8.1-1) ... Removing libsigsegv2:amd64 (2.13-1) ... Removing libsqlite3-0:amd64 (3.34.1-3) ... Removing libtask-weaken-perl (1.06-1) ... Removing libxml-namespacesupport-perl (1.12-1.1) ... Removing lynx-common (2.9.0dev.6-3~deb11u1) ... Removing media-types (4.0.0) ... Removing menu (2.1.48) ... Removing muscle (1:3.8.1551-2) ... Removing mustang (3.2.3-4) ... Removing ncbi-data (6.1.20170106+dfsg1-9) ... Removing poa (2.0+20060928-8) ... Removing prank (0.0.170427+dfsg-3) ... Removing probcons (1.12-13) ... Removing proda (1.0-13) ... Removing readline-common (8.1-1) ... Removing ruby-bio (2.0.1-2) ... Removing ruby-fixwhich (1.0.2-2) ... Removing ruby-pathname2 (1.8.2-2) ... Removing ruby-facade (1.2.1-1) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.14) ... Removing sim4 (0.0.20121010-8) ... Removing t-coffee (13.41.0.28bdc39+dfsg-4) ... Removing unzip (6.0-26+deb11u1) ... Removing xdg-user-dirs (0.17-2) ... Removing xz-utils (5.2.5-2.1~deb11u1) ... Removing zip (3.0-12) ... Removing libxml-parser-perl:amd64 (2.46-2) ... Removing libexpat1:amd64 (2.2.10-2+deb11u5) ... Removing liblwp-protocol-https-perl (6.10-1) ... Removing libio-socket-ssl-perl (2.069-1) ... Removing libnet-ssleay-perl (1.88-3+b1) ... Removing perl-openssl-defaults:amd64 (5) ... Removing ruby2.7 (2.7.4-1+deb11u1) ... Removing libruby2.7:amd64 (2.7.4-1+deb11u1) ... Removing rake (13.0.3-1) ... Removing ruby (1:2.7+2) ... Removing ruby-rubygems (3.2.5-2) ... Removing rubygems-integration (1.18) ... Removing libwww-perl (6.52-1) ... Removing ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libedit2:amd64 (3.1-20191231-2+b1) ... Removing libbsd0:amd64 (0.11.3-1+deb11u1) ... Removing libhttp-negotiate-perl (6.01-1) ... Removing libfile-listing-perl (6.14-1) ... Removing libhtml-tree-perl (5.07-2) ... Removing libhtml-parser-perl (3.75-1+b1) ... Removing libhtml-tagset-perl (3.20-4) ... Removing libhttp-cookies-perl (6.10-1) ... Removing libmd0:amd64 (1.0.3-3) ... Removing libnet-http-perl (6.20-1) ... Removing libtry-tiny-perl (0.30-1) ... Removing libwww-robotrules-perl (6.02-1) ... Removing libyaml-0-2:amd64 (0.2.2-1) ... Removing netbase (6.3) ... Removing openssl (1.1.1w-0+deb11u1) ... Removing ruby-minitest (5.13.0-1) ... Removing ruby-net-telnet (0.1.1-2) ... Removing ruby-test-unit (3.3.9-1) ... Removing ruby-power-assert (1.1.7-2) ... Removing ruby-xmlrpc (0.3.0-2) ... Removing libhttp-message-perl (6.28-1) ... Removing libencode-locale-perl (1.05-1.1) ... Removing libhttp-date-perl (6.05-1) ... Removing libio-html-perl (1.004-2) ... Removing liblwp-mediatypes-perl (6.04-1) ... Removing libtimedate-perl (2.3300-2) ... Removing liburi-perl (5.08-1) ... Removing perl (5.32.1-4+deb11u3) ... Removing libperl5.32:amd64 (5.32.1-4+deb11u3) ... Removing libgdbm-compat4:amd64 (1.19-2) ... Removing libgdbm6:amd64 (1.19-2) ... Removing perl-modules-5.32 (5.32.1-4+deb11u3) ... Processing triggers for libc-bin (2.31-13+deb11u8) ... 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'remove', 'amap-align', 'blends-common', 'bzip2', 'ca-certificates', 'clustalo', 'clustalw', 'dialign-tx', 'dialign-tx-data', 'exonerate', 'file', 'fonts-lato', 'fsa', 'gawk', 'hmmer', 'javascript-common', 'kalign', 'libargtable2-0', 'libauthen-sasl-perl', 'libbsd0:amd64', 'libclass-inspector-perl', 'libclone-perl', 'libconvert-binhex-perl', 'libdata-dump-perl', 'libdivsufsort3:amd64', 'libedit2:amd64', 'libencode-locale-perl', 'libexpat1:amd64', 'libfcgi-bin', 'libfcgi-perl:amd64', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfont-afm-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgpm2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu67:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-stringy-perl', 'libjs-jquery', 'liblmdb0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmd0:amd64', 'libmime-tools-perl', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libperl5.32:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libruby2.7:amd64', 'libsigsegv2:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libtask-weaken-perl', 'libtimedate-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl:amd64', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libyaml-0-2:amd64', 'lynx', 'lynx-common', 'mafft', 'mailcap', 'med-config', 'media-types', 'menu', 'mime-support', 'mummer', 'muscle', 'mustang', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.32', 'perl-openssl-defaults:amd64', 'poa', 'prank', 'probcons', 'proda', 'python3', 'python3-minimal', 'python3.9', 'python3.9-minimal', 'rake', 'readline-common', 'ruby', 'ruby-bio', 'ruby-facade', 'ruby-fixwhich', 'ruby-minitest', 'ruby-net-telnet', 'ruby-pathname2', 'ruby-power-assert', 'ruby-rubygems', 'ruby-test-unit', 'ruby-threach', 'ruby-trollop', 'ruby-xmlrpc', 'ruby2.7', 'rubygems-integration', 'sensible-utils', 'shared-mime-info', 'sim4', 't-coffee', 'tm-align', 'ucf', 'unzip', 'xdg-user-dirs', 'xz-utils', 'zip', 'ruby-crb-blast'] 0m44.5s INFO: Running scripts post_remove 0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_remove_exceptions'] 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_remove_exceptions'] 0m44.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--purge', 'amap-align', 'blends-common', 'bzip2', 'ca-certificates', 'clustalo', 'clustalw', 'dialign-tx', 'dialign-tx-data', 'exonerate', 'file', 'fonts-lato', 'fsa', 'gawk', 'hmmer', 'javascript-common', 'kalign', 'libargtable2-0', 'libauthen-sasl-perl', 'libbsd0:amd64', 'libclass-inspector-perl', 'libclone-perl', 'libconvert-binhex-perl', 'libdata-dump-perl', 'libdivsufsort3:amd64', 'libedit2:amd64', 'libencode-locale-perl', 'libexpat1:amd64', 'libfcgi-bin', 'libfcgi-perl:amd64', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfont-afm-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgpm2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu67:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-stringy-perl', 'libjs-jquery', 'liblmdb0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmd0:amd64', 'libmime-tools-perl', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libperl5.32:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libruby2.7:amd64', 'libsigsegv2:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libtask-weaken-perl', 'libtimedate-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl:amd64', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libyaml-0-2:amd64', 'lynx', 'lynx-common', 'mafft', 'mailcap', 'med-config', 'media-types', 'menu', 'mime-support', 'mummer', 'muscle', 'mustang', 'ncbi-blast+', 'ncbi-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.32', 'perl-openssl-defaults:amd64', 'poa', 'prank', 'probcons', 'proda', 'python3', 'python3-minimal', 'python3.9', 'python3.9-minimal', 'rake', 'readline-common', 'ruby', 'ruby-bio', 'ruby-facade', 'ruby-fixwhich', 'ruby-minitest', 'ruby-net-telnet', 'ruby-pathname2', 'ruby-power-assert', 'ruby-rubygems', 'ruby-test-unit', 'ruby-threach', 'ruby-trollop', 'ruby-xmlrpc', 'ruby2.7', 'rubygems-integration', 'sensible-utils', 'shared-mime-info', 'sim4', 't-coffee', 'tm-align', 'ucf', 'unzip', 'xdg-user-dirs', 'xz-utils', 'zip'] 0m45.1s DUMP: dpkg: warning: ignoring request to remove amap-align which isn't installed (Reading database ... 6723 files and directories currently installed.) Purging configuration files for blends-common (0.7.2) ... dpkg: warning: ignoring request to remove bzip2 which isn't installed Purging configuration files for ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. dpkg: warning: ignoring request to remove clustalo which isn't installed Purging configuration files for clustalw (2.1+lgpl-7) ... dpkg: warning: ignoring request to remove dialign-tx which isn't installed dpkg: warning: ignoring request to remove dialign-tx-data which isn't installed dpkg: warning: ignoring request to remove exonerate which isn't installed dpkg: warning: ignoring request to remove file which isn't installed dpkg: warning: ignoring request to remove fonts-lato which isn't installed dpkg: warning: ignoring request to remove fsa which isn't installed Purging configuration files for gawk (1:5.1.0-1) ... dpkg: warning: ignoring request to remove hmmer which isn't installed Purging configuration files for javascript-common (11+nmu1) ... dpkg: warning: ignoring request to remove kalign which isn't installed dpkg: warning: ignoring request to remove libargtable2-0 which isn't installed dpkg: warning: ignoring request to remove libauthen-sasl-perl which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libclass-inspector-perl which isn't installed dpkg: warning: ignoring request to remove libclone-perl which isn't installed dpkg: warning: ignoring request to remove libconvert-binhex-perl which isn't installed dpkg: warning: ignoring request to remove libdata-dump-perl which isn't installed dpkg: warning: ignoring request to remove libdivsufsort3 which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libencode-locale-perl which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfcgi-bin which isn't installed dpkg: warning: ignoring request to remove libfcgi-perl which isn't installed dpkg: warning: ignoring request to remove libfcgi0ldbl which isn't installed dpkg: warning: ignoring request to remove libfile-listing-perl which isn't installed dpkg: warning: ignoring request to remove libfont-afm-perl which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.66.8-1+deb11u1) ... dpkg: warning: ignoring request to remove libglib2.0-data which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgpm2 which isn't installed dpkg: warning: ignoring request to remove libhtml-form-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-format-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tagset-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tree-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-cookies-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-daemon-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-date-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-message-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-negotiate-perl which isn't installed dpkg: warning: ignoring request to remove libicu67 which isn't installed dpkg: warning: ignoring request to remove libidn11 which isn't installed dpkg: warning: ignoring request to remove libio-html-perl which isn't installed dpkg: warning: ignoring request to remove libio-sessiondata-perl which isn't installed dpkg: warning: ignoring request to remove libio-socket-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libio-stringy-perl which isn't installed Purging configuration files for libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove liblwp-mediatypes-perl which isn't installed dpkg: warning: ignoring request to remove liblwp-protocol-https-perl which isn't installed dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.39-3+deb11u1) ... dpkg: warning: ignoring request to remove libmailtools-perl which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto3 which isn't installed dpkg: warning: ignoring request to remove libmbedtls12 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-0 which isn't installed dpkg: warning: ignoring request to remove libmd0 which isn't installed dpkg: warning: ignoring request to remove libmime-tools-perl which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnet-http-perl which isn't installed dpkg: warning: ignoring request to remove libnet-smtp-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libnet-ssleay-perl which isn't installed dpkg: warning: ignoring request to remove libossp-uuid-perl which isn't installed dpkg: warning: ignoring request to remove libossp-uuid16 which isn't installed dpkg: warning: ignoring request to remove libperl5.32 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.9-minimal:amd64 (3.9.2-1) ... dpkg: warning: ignoring request to remove libpython3.9-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libruby2.7 which isn't installed dpkg: warning: ignoring request to remove libsigsegv2 which isn't installed dpkg: warning: ignoring request to remove libsoap-lite-perl which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libtask-weaken-perl which isn't installed dpkg: warning: ignoring request to remove libtimedate-perl which isn't installed dpkg: warning: ignoring request to remove libtry-tiny-perl which isn't installed dpkg: warning: ignoring request to remove liburi-perl which isn't installed dpkg: warning: ignoring request to remove libwww-perl which isn't installed dpkg: warning: ignoring request to remove libwww-robotrules-perl which isn't installed dpkg: warning: ignoring request to remove libxml-libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-namespacesupport-perl which isn't installed dpkg: warning: ignoring request to remove libxml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-base-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-expat-perl which isn't installed Purging configuration files for libxml-sax-perl (1.02+dfsg-1) ... dpkg: warning: ignoring request to remove libxml-simple-perl which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxmlrpc-lite-perl which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed Purging configuration files for lynx (2.9.0dev.6-3~deb11u1) ... Purging configuration files for lynx-common (2.9.0dev.6-3~deb11u1) ... dpkg: warning: ignoring request to remove mafft which isn't installed Purging configuration files for mailcap (3.69) ... Purging configuration files for med-config (3.7) ... Purging configuration files for media-types (4.0.0) ... Purging configuration files for menu (2.1.48) ... dpkg: warning: ignoring request to remove mime-support which isn't installed dpkg: warning: ignoring request to remove mummer which isn't installed dpkg: warning: ignoring request to remove muscle which isn't installed dpkg: warning: ignoring request to remove mustang which isn't installed dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-9) ... Purging configuration files for netbase (6.3) ... Purging configuration files for openssl (1.1.1w-0+deb11u1) ... Purging configuration files for perl (5.32.1-4+deb11u3) ... dpkg: warning: ignoring request to remove perl-modules-5.32 which isn't installed dpkg: warning: ignoring request to remove perl-openssl-defaults which isn't installed dpkg: warning: ignoring request to remove poa which isn't installed dpkg: warning: ignoring request to remove prank which isn't installed dpkg: warning: ignoring request to remove probcons which isn't installed dpkg: warning: ignoring request to remove proda which isn't installed Purging configuration files for python3 (3.9.2-3) ... dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3.9 which isn't installed Purging configuration files for python3.9-minimal (3.9.2-1) ... dpkg: warning: ignoring request to remove rake which isn't installed Purging configuration files for readline-common (8.1-1) ... dpkg: warning: ignoring request to remove ruby which isn't installed dpkg: warning: ignoring request to remove ruby-bio which isn't installed dpkg: warning: ignoring request to remove ruby-facade which isn't installed dpkg: warning: ignoring request to remove ruby-fixwhich which isn't installed dpkg: warning: ignoring request to remove ruby-minitest which isn't installed dpkg: warning: ignoring request to remove ruby-net-telnet which isn't installed dpkg: warning: ignoring request to remove ruby-pathname2 which isn't installed dpkg: warning: ignoring request to remove ruby-power-assert which isn't installed dpkg: warning: ignoring request to remove ruby-rubygems which isn't installed dpkg: warning: ignoring request to remove ruby-test-unit which isn't installed dpkg: warning: ignoring request to remove ruby-threach which isn't installed dpkg: warning: ignoring request to remove ruby-trollop which isn't installed dpkg: warning: ignoring request to remove ruby-xmlrpc which isn't installed dpkg: warning: ignoring request to remove ruby2.7 which isn't installed dpkg: warning: ignoring request to remove rubygems-integration which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for shared-mime-info (2.0-1) ... dpkg: warning: ignoring request to remove sim4 which isn't installed dpkg: warning: ignoring request to remove t-coffee which isn't installed dpkg: warning: ignoring request to remove tm-align which isn't installed Purging configuration files for ucf (3.0043) ... Purging configuration files for unzip (6.0-26+deb11u1) ... Purging configuration files for xdg-user-dirs (0.17-2) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed 0m45.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--purge', 'amap-align', 'blends-common', 'bzip2', 'ca-certificates', 'clustalo', 'clustalw', 'dialign-tx', 'dialign-tx-data', 'exonerate', 'file', 'fonts-lato', 'fsa', 'gawk', 'hmmer', 'javascript-common', 'kalign', 'libargtable2-0', 'libauthen-sasl-perl', 'libbsd0:amd64', 'libclass-inspector-perl', 'libclone-perl', 'libconvert-binhex-perl', 'libdata-dump-perl', 'libdivsufsort3:amd64', 'libedit2:amd64', 'libencode-locale-perl', 'libexpat1:amd64', 'libfcgi-bin', 'libfcgi-perl:amd64', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfont-afm-perl', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgpm2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu67:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-stringy-perl', 'libjs-jquery', 'liblmdb0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmd0:amd64', 'libmime-tools-perl', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libperl5.32:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libruby2.7:amd64', 'libsigsegv2:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libtask-weaken-perl', 'libtimedate-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl:amd64', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libyaml-0-2:amd64', 'lynx', 'lynx-common', 'mafft', 'mailcap', 'med-config', 'media-types', 'menu', 'mime-support', 'mummer', 'muscle', 'mustang', 'ncbi-blast+', 'ncbi-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.32', 'perl-openssl-defaults:amd64', 'poa', 'prank', 'probcons', 'proda', 'python3', 'python3-minimal', 'python3.9', 'python3.9-minimal', 'rake', 'readline-common', 'ruby', 'ruby-bio', 'ruby-facade', 'ruby-fixwhich', 'ruby-minitest', 'ruby-net-telnet', 'ruby-pathname2', 'ruby-power-assert', 'ruby-rubygems', 'ruby-test-unit', 'ruby-threach', 'ruby-trollop', 'ruby-xmlrpc', 'ruby2.7', 'rubygems-integration', 'sensible-utils', 'shared-mime-info', 'sim4', 't-coffee', 'tm-align', 'ucf', 'unzip', 'xdg-user-dirs', 'xz-utils', 'zip'] 0m45.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--purge', 'ruby-crb-blast'] 0m45.1s DUMP: dpkg: warning: ignoring request to remove ruby-crb-blast which isn't installed 0m45.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--purge', 'ruby-crb-blast'] 0m45.1s INFO: Running scripts post_purge 0m45.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_purge_exceptions'] 0m45.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_purge_exceptions'] 0m45.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--purge', '--pending'] 0m45.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--purge', '--pending'] 0m45.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--remove', '--pending'] 0m45.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg', '--remove', '--pending'] 0m45.1s INFO: Running scripts post_test 0m45.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_test_exceptions'] 0m45.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'tmp/scripts/post_test_exceptions'] 0m45.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m45.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m46.5s DEBUG: No broken symlinks as far as we can find. 0m46.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-divert', '--list'] 0m46.5s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m46.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'dpkg-divert', '--list'] 0m46.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'clean'] 0m46.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g', 'apt-get', 'clean'] 0m46.5s DEBUG: Recording chroot state 0m47.3s INFO: PASS: Installation and purging test. 0m47.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/shm'] 0m47.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/shm'] 0m47.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/console'] 0m47.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/console'] 0m47.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/ptmx'] 0m47.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/ptmx'] 0m47.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/pts'] 0m47.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/dev/pts'] 0m47.9s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/proc'] 0m47.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g/proc'] 0m47.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m48.0s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdr19s4_g'] 0m48.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpdr19s4_g 0m48.1s INFO: PASS: All tests. 0m48.1s INFO: piuparts run ends. ret=0 End: 2024-03-07 05:43:44 GMT