Start: 2024-09-05 16:17:14 GMT Package: libhtsjdk-java Source: htsjdk Version: 4.1.0+dfsg-2 Installed-Size: 1990 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-compress-java, libcommons-jexl2-java, libmjson-java, libngs-java, librhino-java, libsnappy-java Suggests: picard-tools, python3 Description: Java API for high-throughput sequencing data (HTS) formats Homepage: https://samtools.github.io/htsjdk/ Description-md5: af3d0552d0d6d0c31899271354b48622 Section: java Priority: optional Filename: pool/main/h/htsjdk/libhtsjdk-java_4.1.0+dfsg-2_all.deb Size: 1832636 MD5sum: 7a6cac75724fd91282ab3f41b99f4253 SHA256: 8cab5826b2b3a4e2fc6019ffc4e318483ad6eeb23c86ebf5920367228c491be8 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-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt libhtsjdk-java=4.1.0+dfsg-2 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.4~202408201135~1.4.3-10-g39df1906 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt libhtsjdk-java=4.1.0+dfsg-2 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-32-amd64 #1 SMP Debian 5.10.223-1 (2024-08-10) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp_f0lchui 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp_f0lchui 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m0.2s DEBUG: Created policy-rc.d and chmodded it. 0m0.2s DEBUG: Created resolv.conf. 0m0.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp_f0lchui/tmp/scripts/ 0m0.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts-leftovers to /srv/piuparts.debian.org/tmp/tmp_f0lchui/tmp/scripts/ 0m0.2s INFO: Running scripts post_chroot_unpack 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'update'] 0m2.1s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9945 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7293 kB] Fetched 17.4 MB in 1s (12.1 MB/s) Reading package lists... 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'update'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s DUMP: 7adf4eec3457d6faecd68045f9fc9fa4 - 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s INFO: Running scripts post_setup 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_dummy_users'] 0m3.0s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_dummy_users'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_fake-essential'] 0m3.7s DUMP: *** Adding fake essential packages *** Reading package lists... Building dependency tree... init-system-helpers is already the newest version (1.66). The following additional packages will be installed: sensible-utils ucf Suggested packages: dbconfig-mysql | dbconfig-pgsql | dbconfig-sqlite3 | dbconfig-no-thanks The following NEW packages will be installed: dbconfig-common sensible-utils ucf 0 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 672 kB of archives. After this operation, 1826 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:2 http://deb.debian.org/debian sid/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:3 http://deb.debian.org/debian sid/main amd64 dbconfig-common all 2.0.24 [592 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 672 kB in 0s (27.2 MB/s) Selecting previously unselected package sensible-utils. (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 ... 5129 files and directories currently installed.) Preparing to unpack .../sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package ucf. Preparing to unpack .../ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package dbconfig-common. Preparing to unpack .../dbconfig-common_2.0.24_all.deb ... Unpacking dbconfig-common (2.0.24) ... Setting up sensible-utils (0.0.24) ... Setting up ucf (3.0043+nmu1) ... Setting up dbconfig-common (2.0.24) ... Creating config file /etc/dbconfig-common/config with new version 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_fake-essential'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_forbid_home'] 0m3.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_forbid_home'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.7s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_minimize'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_minimize'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_zz_backports'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_setup_zz_backports'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'clean'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'clean'] 0m3.7s DEBUG: Recording chroot state 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.0s DUMP: install ok installed apt apt 2.9.8 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1 install ok installed bsdutils bsdutils 1:2.40.2-7 install ok installed coreutils coreutils 9.4-3.1 install ok installed dash dash 0.5.12-9 install ok installed dbconfig-common dbconfig-common 2.0.24 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-4 install ok installed gpgv gpgv 2.2.43-8 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-1 install ok installed libblkid1:amd64 libblkid1 2.40.2-7 install ok installed libbsd0:amd64 libbsd0 0.12.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-2 install ok installed libc6:amd64 libc6 2.40-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-4 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-3 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.40.2-7 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-7 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-1 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-4 install ok installed libsystemd0:amd64 libsystemd0 256.5-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libudev1:amd64 libudev1 256.5-2 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-7 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed login login 1:4.16.0-2+really2.40.2-7 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed mawk mawk 1.3.4.20240819-3 install ok installed mount mount 2.40.2-7 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-1 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.38.2-5 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed sysvinit-utils sysvinit-utils 3.10-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-4 install ok installed ucf ucf 3.0043+nmu1 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-7 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-divert', '--list'] 0m4.0s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-divert', '--list'] 0m4.0s INFO: Running scripts is_testable 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s INFO: apt-cache does not know about any of the requested packages 0m4.0s INFO: Running scripts pre_test 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_test_root_password'] 0m4.0s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_test_root_password'] 0m4.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m4.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m4.5s DEBUG: No broken symlinks as far as we can find. 0m4.5s INFO: Running scripts pre_install 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_database-server'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_database-server'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_exceptions'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_exceptions'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'show', '--no-all-versions', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m5.0s DUMP: Package: libhtsjdk-java Source: htsjdk Version: 4.1.0+dfsg-2 Installed-Size: 1990 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-compress-java, libcommons-jexl2-java, libmjson-java, libngs-java, librhino-java, libsnappy-java Suggests: picard-tools, python3 Description-en: Java API for high-throughput sequencing data (HTS) formats HTSJDK is an implementation of a unified Java library for accessing common file formats, such as SAM (Sequence Alignment/Map) and VCF, used for high-throughput sequencing data. There are also an number of useful utilities for manipulating HTS data. Description-md5: af3d0552d0d6d0c31899271354b48622 Homepage: https://samtools.github.io/htsjdk/ Section: java Priority: optional Filename: pool/main/h/htsjdk/libhtsjdk-java_4.1.0+dfsg-2_all.deb Size: 1832636 MD5sum: 7a6cac75724fd91282ab3f41b99f4253 SHA256: 8cab5826b2b3a4e2fc6019ffc4e318483ad6eeb23c86ebf5920367228c491be8 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'show', '--no-all-versions', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m5.0s DEBUG: metapackage: Package: piuparts-depends-dummy Version: 0.invalid.0 Architecture: all Maintainer: piuparts developers team Depends: libcommons-compress-java, libcommons-jexl2-java, libmjson-java, libngs-java, librhino-java, libsnappy-java Description: Dummy package to satisfy dependencies - created by piuparts This package was created automatically by piuparts and can safely be removed 0m5.0s DEBUG: Starting command: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmperxrf8e_/piuparts-depends-dummy'] 0m5.1s DUMP: dpkg-deb: warning: not checking contents of control area dpkg-deb: building an unknown package in '/srv/piuparts.debian.org/tmp/tmperxrf8e_/piuparts-depends-dummy.deb'. 0m5.1s DEBUG: Command ok: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmperxrf8e_/piuparts-depends-dummy'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m5.1s DUMP: 2.9.8 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m5.1s DEBUG: Copying /srv/piuparts.debian.org/tmp/tmperxrf8e_/piuparts-depends-dummy.deb to /srv/piuparts.debian.org/tmp/tmp_f0lchui/tmp 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb'] 0m6.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libapache-pom-java libcommons-compress-java libcommons-jexl2-java libcommons-logging-java libcommons-parent-java libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmjson-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni librhino-java libsnappy-java libsnappy-jni libsnappy1v5 ncbi-vdb-data Suggested packages: libasm-java libxz-java libavalon-framework-java libexcalibur-logkit-java liblog4j1.2-java libngs-java-doc rhino The following NEW packages will be installed: libapache-pom-java libcommons-compress-java libcommons-jexl2-java libcommons-logging-java libcommons-parent-java libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmjson-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni librhino-java libsnappy-java libsnappy-jni libsnappy1v5 ncbi-vdb-data piuparts-depends-dummy 0 upgraded, 19 newly installed, 0 to remove and 0 not upgraded. Need to get 4508 kB/4509 kB of archives. After this operation, 8798 kB of additional disk space will be used. Get:1 /tmp/piuparts-depends-dummy.deb piuparts-depends-dummy all 0.invalid.0 [670 B] Get:2 http://deb.debian.org/debian sid/main amd64 libapache-pom-java all 29-2 [5276 B] Get:3 http://deb.debian.org/debian sid/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libcommons-compress-java all 1.25.0-1 [635 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libcommons-logging-java all 1.3.0-1 [68.6 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libmbedcrypto7t64 amd64 2.28.8-1 [284 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libmbedx509-1t64 amd64 2.28.8-1 [131 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libmbedtls14t64 amd64 2.28.8-1 [167 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libmjson-java all 1.4.0-3 [60.4 kB] Get:11 http://deb.debian.org/debian sid/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libncbi-vdb3 amd64 3.0.2+dfsg-2+b1 [1049 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libncbi-ngs3 amd64 3.0.3+dfsg-9 [155 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libngs-jni amd64 3.0.3+dfsg-9 [23.8 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libngs-java amd64 3.0.3+dfsg-9 [110 kB] Get:16 http://deb.debian.org/debian sid/main amd64 librhino-java all 1.7.14-2.1 [1357 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libsnappy1v5 amd64 1.2.1-1 [29.1 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libsnappy-jni amd64 1.1.10.5-2 [6396 B] Get:19 http://deb.debian.org/debian sid/main amd64 libsnappy-java all 1.1.10.5-2 [87.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 4508 kB in 1s (4647 kB/s) Selecting previously unselected package libapache-pom-java. (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 ... 5481 files and directories currently installed.) Preparing to unpack .../00-libapache-pom-java_29-2_all.deb ... Unpacking libapache-pom-java (29-2) ... Selecting previously unselected package libcommons-parent-java. Preparing to unpack .../01-libcommons-parent-java_56-1_all.deb ... Unpacking libcommons-parent-java (56-1) ... Selecting previously unselected package libcommons-compress-java. Preparing to unpack .../02-libcommons-compress-java_1.25.0-1_all.deb ... Unpacking libcommons-compress-java (1.25.0-1) ... Selecting previously unselected package libcommons-logging-java. Preparing to unpack .../03-libcommons-logging-java_1.3.0-1_all.deb ... Unpacking libcommons-logging-java (1.3.0-1) ... Selecting previously unselected package libcommons-jexl2-java. Preparing to unpack .../04-libcommons-jexl2-java_2.1.1-6_all.deb ... Unpacking libcommons-jexl2-java (2.1.1-6) ... Selecting previously unselected package libmbedcrypto7t64:amd64. Preparing to unpack .../05-libmbedcrypto7t64_2.28.8-1_amd64.deb ... Unpacking libmbedcrypto7t64:amd64 (2.28.8-1) ... Selecting previously unselected package libmbedx509-1t64:amd64. Preparing to unpack .../06-libmbedx509-1t64_2.28.8-1_amd64.deb ... Unpacking libmbedx509-1t64:amd64 (2.28.8-1) ... Selecting previously unselected package libmbedtls14t64:amd64. Preparing to unpack .../07-libmbedtls14t64_2.28.8-1_amd64.deb ... Unpacking libmbedtls14t64:amd64 (2.28.8-1) ... Selecting previously unselected package libmjson-java. Preparing to unpack .../08-libmjson-java_1.4.0-3_all.deb ... Unpacking libmjson-java (1.4.0-3) ... Selecting previously unselected package ncbi-vdb-data. Preparing to unpack .../09-ncbi-vdb-data_3.0.2+dfsg-2_all.deb ... Unpacking ncbi-vdb-data (3.0.2+dfsg-2) ... Selecting previously unselected package libncbi-vdb3:amd64. Preparing to unpack .../10-libncbi-vdb3_3.0.2+dfsg-2+b1_amd64.deb ... Unpacking libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Selecting previously unselected package libncbi-ngs3:amd64. Preparing to unpack .../11-libncbi-ngs3_3.0.3+dfsg-9_amd64.deb ... Unpacking libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package libngs-jni:amd64. Preparing to unpack .../12-libngs-jni_3.0.3+dfsg-9_amd64.deb ... Unpacking libngs-jni:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package libngs-java:amd64. Preparing to unpack .../13-libngs-java_3.0.3+dfsg-9_amd64.deb ... Unpacking libngs-java:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package librhino-java. Preparing to unpack .../14-librhino-java_1.7.14-2.1_all.deb ... Unpacking librhino-java (1.7.14-2.1) ... Selecting previously unselected package libsnappy1v5:amd64. Preparing to unpack .../15-libsnappy1v5_1.2.1-1_amd64.deb ... Unpacking libsnappy1v5:amd64 (1.2.1-1) ... Selecting previously unselected package libsnappy-jni. Preparing to unpack .../16-libsnappy-jni_1.1.10.5-2_amd64.deb ... Unpacking libsnappy-jni (1.1.10.5-2) ... Selecting previously unselected package libsnappy-java. Preparing to unpack .../17-libsnappy-java_1.1.10.5-2_all.deb ... Unpacking libsnappy-java (1.1.10.5-2) ... Selecting previously unselected package piuparts-depends-dummy. Preparing to unpack .../18-piuparts-depends-dummy.deb ... Unpacking piuparts-depends-dummy (0.invalid.0) ... Setting up libmbedcrypto7t64:amd64 (2.28.8-1) ... Setting up libmjson-java (1.4.0-3) ... Setting up libsnappy1v5:amd64 (1.2.1-1) ... Setting up librhino-java (1.7.14-2.1) ... Setting up libapache-pom-java (29-2) ... Setting up ncbi-vdb-data (3.0.2+dfsg-2) ... Setting up libsnappy-jni (1.1.10.5-2) ... Setting up libmbedx509-1t64:amd64 (2.28.8-1) ... Setting up libcommons-parent-java (56-1) ... Setting up libcommons-logging-java (1.3.0-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libmbedtls14t64:amd64 (2.28.8-1) ... Setting up libsnappy-java (1.1.10.5-2) ... Setting up libcommons-compress-java (1.25.0-1) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Setting up libngs-jni:amd64 (3.0.3+dfsg-9) ... Setting up libngs-java:amd64 (3.0.3+dfsg-9) ... Setting up piuparts-depends-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.40-2) ... 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb'] 0m6.7s INFO: Installation of ['./tmp/piuparts-depends-dummy.deb'] ok 0m6.7s DEBUG: Removing /srv/piuparts.debian.org/tmp/tmp_f0lchui/./tmp/piuparts-depends-dummy.deb 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m6.7s DUMP: piuparts-depends-dummy install ok installed 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m6.7s DUMP: (Reading database ... 5752 files and directories currently installed.) Removing piuparts-depends-dummy (0.invalid.0) ... 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'clean'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'clean'] 0m6.7s DEBUG: Recording chroot state 0m7.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m7.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m7.4s DEBUG: No broken symlinks as far as we can find. 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy'] 0m7.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy'] 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy', 'libhtsjdk-java'] 0m7.9s DUMP: libhtsjdk-java: Installed: (none) Candidate: 4.1.0+dfsg-2 Version table: 4.1.0+dfsg-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy', 'libhtsjdk-java'] 0m7.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', 'install', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m8.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Suggested packages: picard-tools python3 The following NEW packages will be installed: libhtsjdk-java 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 1833 kB of archives. After this operation, 2038 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libhtsjdk-java all 4.1.0+dfsg-2 [1833 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 1833 kB in 0s (72.9 MB/s) Selecting previously unselected package libhtsjdk-java. (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 ... 5752 files and directories currently installed.) Preparing to unpack .../libhtsjdk-java_4.1.0+dfsg-2_all.deb ... Unpacking libhtsjdk-java (4.1.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.0+dfsg-2) ... 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', 'install', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m8.3s INFO: Running scripts post_install 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_install_exceptions'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_install_exceptions'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'remove', 'libhtsjdk-java'] 0m8.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libapache-pom-java libcommons-compress-java libcommons-jexl2-java libcommons-logging-java libcommons-parent-java libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmjson-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni librhino-java libsnappy-java libsnappy-jni libsnappy1v5 ncbi-vdb-data Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libhtsjdk-java 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. After this operation, 2038 kB 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 ... 5770 files and directories currently installed.) Removing libhtsjdk-java (4.1.0+dfsg-2) ... 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'remove', 'libhtsjdk-java'] 0m8.8s INFO: Reinstalling after remove 0m8.8s INFO: Running scripts pre_install 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_database-server'] 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_database-server'] 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_exceptions'] 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_exceptions'] 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_extras'] 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_extras'] 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy'] 0m8.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy'] 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy', 'libhtsjdk-java'] 0m8.9s DUMP: libhtsjdk-java: Installed: (none) Candidate: 4.1.0+dfsg-2 Version table: 4.1.0+dfsg-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy', 'libhtsjdk-java'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', 'install', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m9.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Suggested packages: picard-tools python3 The following NEW packages will be installed: libhtsjdk-java debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/1833 kB of archives. After this operation, 2038 kB of additional disk space will be used. Selecting previously unselected package libhtsjdk-java. (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 ... 5752 files and directories currently installed.) Preparing to unpack .../libhtsjdk-java_4.1.0+dfsg-2_all.deb ... Unpacking libhtsjdk-java (4.1.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.0+dfsg-2) ... 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', 'install', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m9.3s INFO: Running scripts post_install 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_install_exceptions'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_install_exceptions'] 0m9.3s INFO: Running scripts pre_install 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_database-server'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_database-server'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_exceptions'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_exceptions'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_extras'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_extras'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy'] 0m9.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy', 'libhtsjdk-java'] 0m9.4s DUMP: libhtsjdk-java: Installed: 4.1.0+dfsg-2 Candidate: 4.1.0+dfsg-2 Version table: *** 4.1.0+dfsg-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-cache', 'policy', 'libhtsjdk-java'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', 'install', '--reinstall', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m9.8s DUMP: Reading package lists... Building dependency tree... Reading state information... debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 0 newly installed, 1 reinstalled, 0 to remove and 0 not upgraded. Need to get 0 B/1833 kB of archives. After this operation, 0 B of additional disk space will be used. (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 ... 5770 files and directories currently installed.) Preparing to unpack .../libhtsjdk-java_4.1.0+dfsg-2_all.deb ... Unpacking libhtsjdk-java (4.1.0+dfsg-2) over (4.1.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.0+dfsg-2) ... 0m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', '-y', 'install', '--reinstall', 'libhtsjdk-java=4.1.0+dfsg-2'] 0m9.8s INFO: Running scripts post_install 0m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_install_exceptions'] 0m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_install_exceptions'] 0m9.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m10.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m10.3s DEBUG: No broken symlinks as far as we can find. 0m10.5s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', '-ac', '--ignore-obsolete'] 0m10.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', '-ac', '--ignore-obsolete'] 0m10.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m10.9s DUMP: 0.15.6 0m10.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m10.9s INFO: Running adequate version 0.15.6 now. 0m10.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'libhtsjdk-java'] 0m10.9s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'libhtsjdk-java'] 0m10.9s INFO: Running scripts pre_remove 0m10.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m10.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m10.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m10.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m10.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_exceptions'] 0m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_exceptions'] 0m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_preseed_cleanup'] 0m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/pre_remove_preseed_cleanup'] 0m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m11.4s DUMP: install ok installed apt apt 2.9.8 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1 install ok installed bsdutils bsdutils 1:2.40.2-7 install ok installed coreutils coreutils 9.4-3.1 install ok installed dash dash 0.5.12-9 install ok installed dbconfig-common dbconfig-common 2.0.24 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-4 install ok installed gpgv gpgv 2.2.43-8 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libapache-pom-java libapache-pom-java 29-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-1 install ok installed libblkid1:amd64 libblkid1 2.40.2-7 install ok installed libbsd0:amd64 libbsd0 0.12.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-2 install ok installed libc6:amd64 libc6 2.40-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcommons-compress-java libcommons-compress-java 1.25.0-1 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-logging-java libcommons-logging-java 1.3.0-1 install ok installed libcommons-parent-java libcommons-parent-java 56-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-4 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-3 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libhtsjdk-java libhtsjdk-java 4.1.0+dfsg-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmbedcrypto7t64:amd64 libmbedcrypto7t64 2.28.8-1 install ok installed libmbedtls14t64:amd64 libmbedtls14t64 2.28.8-1 install ok installed libmbedx509-1t64:amd64 libmbedx509-1t64 2.28.8-1 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmjson-java libmjson-java 1.4.0-3 install ok installed libmount1:amd64 libmount1 2.40.2-7 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.0.3+dfsg-9 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.0.2+dfsg-2+b1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libngs-java:amd64 libngs-java 3.0.3+dfsg-9 install ok installed libngs-jni:amd64 libngs-jni 3.0.3+dfsg-9 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed librhino-java librhino-java 1.7.14-2.1 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-7 install ok installed libsnappy-java libsnappy-java 1.1.10.5-2 install ok installed libsnappy-jni libsnappy-jni 1.1.10.5-2 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.2.1-1 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-1 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-4 install ok installed libsystemd0:amd64 libsystemd0 256.5-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libudev1:amd64 libudev1 256.5-2 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-7 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed login login 1:4.16.0-2+really2.40.2-7 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed mawk mawk 1.3.4.20240819-3 install ok installed mount mount 2.40.2-7 install ok installed ncbi-vdb-data ncbi-vdb-data 3.0.2+dfsg-2 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-1 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.38.2-5 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed sysvinit-utils sysvinit-utils 3.10-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-4 install ok installed ucf ucf 3.0043+nmu1 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-7 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 0m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'remove', 'libapache-pom-java', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'librhino-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'ncbi-vdb-data', 'libhtsjdk-java'] 0m11.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: libapache-pom-java libcommons-compress-java libcommons-jexl2-java libcommons-logging-java libcommons-parent-java libhtsjdk-java libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmjson-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni librhino-java libsnappy-java libsnappy-jni libsnappy1v5 ncbi-vdb-data 0 upgraded, 0 newly installed, 19 to remove and 0 not upgraded. After this operation, 10.8 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 ... 5770 files and directories currently installed.) Removing libhtsjdk-java (4.1.0+dfsg-2) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing libcommons-logging-java (1.3.0-1) ... Removing libcommons-compress-java (1.25.0-1) ... Removing libcommons-parent-java (56-1) ... Removing libapache-pom-java (29-2) ... Removing libngs-java:amd64 (3.0.3+dfsg-9) ... Removing libngs-jni:amd64 (3.0.3+dfsg-9) ... Removing libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Removing libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Removing libmbedtls14t64:amd64 (2.28.8-1) ... Removing libmbedx509-1t64:amd64 (2.28.8-1) ... Removing libmbedcrypto7t64:amd64 (2.28.8-1) ... Removing libmjson-java (1.4.0-3) ... Removing librhino-java (1.7.14-2.1) ... Removing libsnappy-java (1.1.10.5-2) ... Removing libsnappy-jni (1.1.10.5-2) ... Removing libsnappy1v5:amd64 (1.2.1-1) ... Removing ncbi-vdb-data (3.0.2+dfsg-2) ... Processing triggers for libc-bin (2.40-2) ... 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'remove', 'libapache-pom-java', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'librhino-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'ncbi-vdb-data', 'libhtsjdk-java'] 0m11.8s INFO: Running scripts post_remove 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_remove_cleanup'] 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_remove_cleanup'] 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_remove_exceptions'] 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_remove_exceptions'] 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', 'libapache-pom-java', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'librhino-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'ncbi-vdb-data'] 0m11.8s DUMP: dpkg: warning: ignoring request to remove libapache-pom-java which isn't installed dpkg: warning: ignoring request to remove libcommons-compress-java which isn't installed dpkg: warning: ignoring request to remove libcommons-jexl2-java which isn't installed dpkg: warning: ignoring request to remove libcommons-logging-java which isn't installed dpkg: warning: ignoring request to remove libcommons-parent-java which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7t64 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14t64 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1t64 which isn't installed dpkg: warning: ignoring request to remove libmjson-java which isn't installed dpkg: warning: ignoring request to remove libncbi-ngs3 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 which isn't installed dpkg: warning: ignoring request to remove libngs-java which isn't installed dpkg: warning: ignoring request to remove libngs-jni which isn't installed dpkg: warning: ignoring request to remove librhino-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-jni which isn't installed dpkg: warning: ignoring request to remove libsnappy1v5 which isn't installed dpkg: warning: ignoring request to remove ncbi-vdb-data which isn't installed 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', 'libapache-pom-java', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libmbedcrypto7t64:amd64', 'libmbedtls14t64:amd64', 'libmbedx509-1t64:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'librhino-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'ncbi-vdb-data'] 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', 'libhtsjdk-java'] 0m11.8s DUMP: dpkg: warning: ignoring request to remove libhtsjdk-java which isn't installed 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', 'libhtsjdk-java'] 0m11.8s INFO: Running scripts post_purge 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_purge_exceptions'] 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_purge_exceptions'] 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_purge_manual_cleanup'] 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_purge_manual_cleanup'] 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', '--pending'] 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--purge', '--pending'] 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--remove', '--pending'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg', '--remove', '--pending'] 0m11.9s INFO: Running scripts post_test 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_test_exceptions'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'tmp/scripts/post_test_exceptions'] 0m11.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m12.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m12.3s DEBUG: No broken symlinks as far as we can find. 0m12.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-divert', '--list'] 0m12.3s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m12.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'dpkg-divert', '--list'] 0m12.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'clean'] 0m12.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_f0lchui', 'apt-get', 'clean'] 0m12.3s DEBUG: Recording chroot state 0m12.6s INFO: PASS: Installation and purging test. 0m12.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/shm'] 0m12.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/shm'] 0m12.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/console'] 0m12.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/console'] 0m12.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/ptmx'] 0m12.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/ptmx'] 0m12.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/pts'] 0m12.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/dev/pts'] 0m12.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/proc'] 0m12.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_f0lchui/proc'] 0m12.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m12.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_f0lchui'] 0m12.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp_f0lchui 0m12.9s INFO: PASS: All tests. 0m12.9s INFO: piuparts run ends. ret=0 End: 2024-09-05 16:17:27 GMT