Start: 2024-08-21 20:17:36 GMT [bookworm] Package: sra-toolkit Source: sra-sdk Version: 3.0.3+dfsg-6~deb12u1 Installed-Size: 17192 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbz2-1.0, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libhdf5-103-1, libmagic1 (>= 5.12), libncbi-vdb3 (>= 3.0.2+dfsg), libncbi-wvdb3 (>= 3.0.2+dfsg), libre2-9 (>= 20201101+dfsg), libssl3 (>= 3.0.0), libstdc++6 (>= 12), libxml2 (>= 2.7.4), zlib1g (>= 1:1.2.2) Recommends: med-config Description: utilities for the NCBI Sequence Read Archive Homepage: https://github.com/ncbi/sra-tools/ Description-md5: 1a61cd8ef6f417d5f86c6c13697e7a05 Section: science Priority: optional Filename: pool/main/s/sra-sdk/sra-toolkit_3.0.3+dfsg-6~deb12u1_amd64.deb Size: 6755716 MD5sum: 03b8d093e35c3515a3b68d01f7725212 SHA256: e58bbbf503590c2a4cfdf98da42066330723aa6e46be95fd2b77c758fcbabce0 [bookworm-next] Package: sra-toolkit Source: sra-sdk Version: 3.0.3+dfsg-6~deb12u1 Installed-Size: 17192 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbz2-1.0, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libhdf5-103-1, libmagic1 (>= 5.12), libncbi-vdb3 (>= 3.0.2+dfsg), libncbi-wvdb3 (>= 3.0.2+dfsg), libre2-9 (>= 20201101+dfsg), libssl3 (>= 3.0.0), libstdc++6 (>= 12), libxml2 (>= 2.7.4), zlib1g (>= 1:1.2.2) Recommends: med-config Description: utilities for the NCBI Sequence Read Archive Homepage: https://github.com/ncbi/sra-tools/ Description-md5: 1a61cd8ef6f417d5f86c6c13697e7a05 Section: science Priority: optional Filename: pool/main/s/sra-sdk/sra-toolkit_3.0.3+dfsg-6~deb12u1_amd64.deb Size: 6755716 MD5sum: 03b8d093e35c3515a3b68d01f7725212 SHA256: e58bbbf503590c2a4cfdf98da42066330723aa6e46be95fd2b77c758fcbabce0 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --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/bookworm-merged-usr_amd64.tar.gz -d bookworm -d bookworm-next -B /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat --apt 'sra-toolkit=3.0.3+dfsg-6~deb12u1' 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 1.4.4~202408201642~1.4.3-11-g36a88c35 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --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/bookworm-merged-usr_amd64.tar.gz -d bookworm -d bookworm-next -B /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat --apt 'sra-toolkit=3.0.3+dfsg-6~deb12u1' 0m0.0s INFO: Running on: Linux piu-slave-conova-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/tmpl35bnga4 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpl35bnga4 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/proc'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/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/tmpl35bnga4/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/tmpl35bnga4/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm 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/tmpl35bnga4/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'update'] 0m1.5s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'update'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-yf', 'dist-upgrade'] 0m2.0s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-yf', 'dist-upgrade'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s DUMP: 913e17be84ed63a3110ce3137c1d003a - 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s INFO: Running scripts post_setup 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s 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 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_forbid_home'] 0m3.5s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_forbid_home'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.5s 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' 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_minimize'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_minimize'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_zz_backports'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_setup_zz_backports'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.5s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u6 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u7 install ok installed libc6:amd64 libc6 2.36-9+deb12u7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.26-1~deb12u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.26-1~deb12u2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.5s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat 0m3.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m3.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m3.9s INFO: Running scripts is_testable 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s INFO: Running scripts pre_test 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', '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/tmpl35bnga4', 'tmp/scripts/pre_test_root_password'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'show', '--no-all-versions', 'sra-toolkit'] 0m4.2s DUMP: Package: sra-toolkit Source: sra-sdk Version: 3.0.3+dfsg-6~deb12u1 Installed-Size: 17192 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbz2-1.0, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libhdf5-103-1, libmagic1 (>= 5.12), libncbi-vdb3 (>= 3.0.2+dfsg), libncbi-wvdb3 (>= 3.0.2+dfsg), libre2-9 (>= 20201101+dfsg), libssl3 (>= 3.0.0), libstdc++6 (>= 12), libxml2 (>= 2.7.4), zlib1g (>= 1:1.2.2) Recommends: med-config Description-en: utilities for the NCBI Sequence Read Archive Tools for reading the SRA archive, generally by converting individual runs into some commonly used format such as fastq. . The textual dumpers "sra-dump" and "vdb-dump" are provided in this release as an aid in visual inspection. It is likely that their actual output formatting will be changed in the near future to a stricter, more formalized representation[s]. PLEASE DO NOT RELY UPON THE OUTPUT FORMAT SEEN IN THIS RELEASE. . Other tools distributed in this package are: abi-dump, abi-load align-info bam-load cache-mgr cg-load copycat fasterq-dump fastq-dump, fastq-load helicos-load illumina-dump, illumina-load kar kdbmeta latf-load pacbio-load prefetch rcexplain remote-fuser sff-dump, sff-load sra-pileup, sra-sort, sra-stat, srapath srf-load test-sra vdb-config, vdb-copy, vdb-decrypt, vdb-encrypt, vdb-get, vdb-lock, vdb-passwd, vdb-unlock, vdb-validate . The "help" information will be improved in near future releases, and the tool options will become standardized across the set. More documentation will also be provided documentation on the NCBI web site. . Tool options may change in the next release. Version 1 tool options will remain supported wherever possible in order to preserve operation of any existing scripts. Description-md5: 1a61cd8ef6f417d5f86c6c13697e7a05 Homepage: https://github.com/ncbi/sra-tools/ Section: science Priority: optional Filename: pool/main/s/sra-sdk/sra-toolkit_3.0.3+dfsg-6~deb12u1_amd64.deb Size: 6755716 MD5sum: 03b8d093e35c3515a3b68d01f7725212 SHA256: e58bbbf503590c2a4cfdf98da42066330723aa6e46be95fd2b77c758fcbabce0 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'show', '--no-all-versions', 'sra-toolkit'] 0m4.2s INFO: apt-cache knows about the following packages: sra-toolkit 0m4.2s INFO: Running scripts pre_install 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_database-server'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_database-server'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_exceptions'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_exceptions'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_extras'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_extras'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy'] 0m4.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy', 'sra-toolkit'] 0m4.3s DUMP: sra-toolkit: Installed: (none) Candidate: 3.0.3+dfsg-6~deb12u1 Version table: 3.0.3+dfsg-6~deb12u1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy', 'sra-toolkit'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-y', 'install', 'sra-toolkit'] 0m12.9s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: libaec0 libbrotli1 libcurl4 libgssapi-krb5-2 libhdf5-103-1 libicu72 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libmagic-mgc libmagic1 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncbi-vdb3 libncbi-wvdb3 libnghttp2-14 libpsl5 libre2-9 librtmp1 libsasl2-2 libsasl2-modules-db libssh2-1 libssl3 libsz2 libxml2 ncbi-vdb-data Suggested packages: krb5-doc krb5-user file Recommended packages: ca-certificates krb5-locales libldap-common publicsuffix libsasl2-modules med-config The following NEW packages will be installed: libaec0 libbrotli1 libcurl4 libgssapi-krb5-2 libhdf5-103-1 libicu72 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libmagic-mgc libmagic1 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncbi-vdb3 libncbi-wvdb3 libnghttp2-14 libpsl5 libre2-9 librtmp1 libsasl2-2 libsasl2-modules-db libssh2-1 libssl3 libsz2 libxml2 ncbi-vdb-data sra-toolkit 0 upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 25.3 MB of archives. After this operation, 89.1 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libaec0 amd64 1.0.6-1+b1 [21.1 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:6 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.13-1~deb12u1 [2022 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-10+deb12u6 [390 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libsz2 amd64 1.0.6-1+b1 [7804 B] Get:18 http://deb.debian.org/debian bookworm/main amd64 libhdf5-103-1 amd64 1.10.8+repack1-1 [1237 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.3-1 [277 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.3-1 [128 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.3-1 [163 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libncbi-vdb3 amd64 3.0.2+dfsg-2 [1050 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libncbi-wvdb3 amd64 3.0.2+dfsg-2 [1078 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libre2-9 amd64 20220601+dfsg-1+b1 [179 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 sra-toolkit amd64 3.0.3+dfsg-6~deb12u1 [6756 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 25.3 MB in 5s (5135 kB/s) Selecting previously unselected package libaec0:amd64. (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 ... 6093 files and directories currently installed.) Preparing to unpack .../00-libaec0_1.0.6-1+b1_amd64.deb ... Unpacking libaec0:amd64 (1.0.6-1+b1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../01-libbrotli1_1.0.9-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b6) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../02-libkrb5support0_1.20.1-2+deb12u1_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../03-libk5crypto3_1.20.1-2+deb12u1_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../04-libkeyutils1_1.6.3-2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-2) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../05-libssl3_3.0.13-1~deb12u1_amd64.deb ... Unpacking libssl3:amd64 (3.0.13-1~deb12u1) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../06-libkrb5-3_1.20.1-2+deb12u1_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../07-libgssapi-krb5-2_1.20.1-2+deb12u1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../08-libsasl2-modules-db_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../09-libsasl2-2_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../10-libldap-2.5-0_2.5.13+dfsg-5_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../11-libnghttp2-14_1.52.0-1+deb12u1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../12-libpsl5_0.21.2-1_amd64.deb ... Unpacking libpsl5:amd64 (0.21.2-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../13-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../14-libssh2-1_1.10.0-3+b1_amd64.deb ... Unpacking libssh2-1:amd64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../15-libcurl4_7.88.1-10+deb12u6_amd64.deb ... Unpacking libcurl4:amd64 (7.88.1-10+deb12u6) ... Selecting previously unselected package libsz2:amd64. Preparing to unpack .../16-libsz2_1.0.6-1+b1_amd64.deb ... Unpacking libsz2:amd64 (1.0.6-1+b1) ... Selecting previously unselected package libhdf5-103-1:amd64. Preparing to unpack .../17-libhdf5-103-1_1.10.8+repack1-1_amd64.deb ... Unpacking libhdf5-103-1:amd64 (1.10.8+repack1-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../18-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../19-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../20-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package libmbedcrypto7:amd64. Preparing to unpack .../21-libmbedcrypto7_2.28.3-1_amd64.deb ... Unpacking libmbedcrypto7:amd64 (2.28.3-1) ... Selecting previously unselected package libmbedx509-1:amd64. Preparing to unpack .../22-libmbedx509-1_2.28.3-1_amd64.deb ... Unpacking libmbedx509-1:amd64 (2.28.3-1) ... Selecting previously unselected package libmbedtls14:amd64. Preparing to unpack .../23-libmbedtls14_2.28.3-1_amd64.deb ... Unpacking libmbedtls14:amd64 (2.28.3-1) ... Selecting previously unselected package ncbi-vdb-data. Preparing to unpack .../24-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 .../25-libncbi-vdb3_3.0.2+dfsg-2_amd64.deb ... Unpacking libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Selecting previously unselected package libncbi-wvdb3:amd64. Preparing to unpack .../26-libncbi-wvdb3_3.0.2+dfsg-2_amd64.deb ... Unpacking libncbi-wvdb3:amd64 (3.0.2+dfsg-2) ... Selecting previously unselected package libre2-9:amd64. Preparing to unpack .../27-libre2-9_20220601+dfsg-1+b1_amd64.deb ... Unpacking libre2-9:amd64 (20220601+dfsg-1+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../28-libxml2_2.9.14+dfsg-1.3~deb12u1_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package sra-toolkit. Preparing to unpack .../29-sra-toolkit_3.0.3+dfsg-6~deb12u1_amd64.deb ... Unpacking sra-toolkit (3.0.3+dfsg-6~deb12u1) ... Setting up libre2-9:amd64 (20220601+dfsg-1+b1) ... Setting up libkeyutils1:amd64 (1.6.3-2) ... Setting up libpsl5:amd64 (0.21.2-1) ... Setting up libicu72:amd64 (72.1-3) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up libssl3:amd64 (3.0.13-1~deb12u1) ... Setting up libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Setting up libmagic1:amd64 (1:5.44-3) ... Setting up libaec0:amd64 (1.0.6-1+b1) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up libmbedcrypto7:amd64 (2.28.3-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up ncbi-vdb-data (3.0.2+dfsg-2) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libsz2:amd64 (1.0.6-1+b1) ... Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up libncbi-wvdb3:amd64 (3.0.2+dfsg-2) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Setting up libcurl4:amd64 (7.88.1-10+deb12u6) ... Setting up libhdf5-103-1:amd64 (1.10.8+repack1-1) ... Setting up sra-toolkit (3.0.3+dfsg-6~deb12u1) ... Processing triggers for libc-bin (2.36-9+deb12u7) ... 0m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-y', 'install', 'sra-toolkit'] 0m12.9s INFO: Running scripts post_install 0m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_install_exceptions'] 0m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_install_exceptions'] 0m12.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m13.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m13.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpl35bnga4 to bookworm-next 0m13.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main deb http://security.debian.org bookworm-security main deb http://deb.debian.org/debian/ bookworm-updates main deb http://deb.debian.org/debian/ bookworm-proposed-updates main 0m13.2s INFO: Running scripts pre_distupgrade 0m13.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m13.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m13.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_exceptions'] 0m13.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_exceptions'] 0m13.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m13.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m13.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m13.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m13.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m13.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m13.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'update'] 0m14.5s DUMP: Get:1 http://security.debian.org bookworm-security InRelease [48.0 kB] Hit:2 http://deb.debian.org/debian bookworm InRelease Get:3 http://deb.debian.org/debian bookworm-updates InRelease [55.4 kB] Get:4 http://deb.debian.org/debian bookworm-proposed-updates InRelease [59.5 kB] Get:5 http://security.debian.org bookworm-security/main amd64 Packages [176 kB] Get:6 http://security.debian.org bookworm-security/main Translation-en [106 kB] Get:7 http://deb.debian.org/debian bookworm-updates/main amd64 Packages [13.8 kB] Get:8 http://deb.debian.org/debian bookworm-updates/main Translation-en [16.0 kB] Get:9 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages [90.8 kB] Get:10 http://deb.debian.org/debian bookworm-proposed-updates/main Translation-en [51.3 kB] Fetched 616 kB in 1s (1042 kB/s) Reading package lists... 0m14.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'update'] 0m14.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-yf', 'dist-upgrade'] 0m17.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libc-bin libc6 libgssapi-krb5-2 libk5crypto3 libkrb5-3 libkrb5support0 libssl3 libsystemd0 libudev1 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6404 kB of archives. After this operation, 5120 B of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libc6 amd64 2.36-9+deb12u8 [2754 kB] Get:2 http://security.debian.org bookworm-security/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u2 [135 kB] Get:3 http://security.debian.org bookworm-security/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u2 [332 kB] Get:4 http://security.debian.org bookworm-security/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u2 [32.6 kB] Get:5 http://security.debian.org bookworm-security/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u2 [78.7 kB] Get:6 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libc-bin amd64 2.36-9+deb12u8 [608 kB] Get:7 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libsystemd0 amd64 252.29-1~deb12u1 [332 kB] Get:8 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libudev1 amd64 252.29-1~deb12u1 [108 kB] Get:9 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libssl3 amd64 3.0.13-1~deb12u2 [2023 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6404 kB in 1s (5750 kB/s) (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 ... 6476 files and directories currently installed.) Preparing to unpack .../libc6_2.36-9+deb12u8_amd64.deb ... Unpacking libc6:amd64 (2.36-9+deb12u8) over (2.36-9+deb12u7) ... Setting up libc6:amd64 (2.36-9+deb12u8) ... (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 ... 6476 files and directories currently installed.) Preparing to unpack .../libc-bin_2.36-9+deb12u8_amd64.deb ... Unpacking libc-bin (2.36-9+deb12u8) over (2.36-9+deb12u7) ... Setting up libc-bin (2.36-9+deb12u8) ... (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 ... 6476 files and directories currently installed.) Preparing to unpack .../libsystemd0_252.29-1~deb12u1_amd64.deb ... Unpacking libsystemd0:amd64 (252.29-1~deb12u1) over (252.26-1~deb12u2) ... Setting up libsystemd0:amd64 (252.29-1~deb12u1) ... (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 ... 6476 files and directories currently installed.) Preparing to unpack .../libudev1_252.29-1~deb12u1_amd64.deb ... Unpacking libudev1:amd64 (252.29-1~deb12u1) over (252.26-1~deb12u2) ... Setting up libudev1:amd64 (252.29-1~deb12u1) ... (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 ... 6476 files and directories currently installed.) Preparing to unpack .../libgssapi-krb5-2_1.20.1-2+deb12u2_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libkrb5-3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libkrb5support0_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libk5crypto3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libssl3_3.0.13-1~deb12u2_amd64.deb ... Unpacking libssl3:amd64 (3.0.13-1~deb12u2) over (3.0.13-1~deb12u1) ... Setting up libssl3:amd64 (3.0.13-1~deb12u2) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 0m17.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-yf', 'dist-upgrade'] 0m17.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m17.7s DUMP: d8d332c94c6ed6182814c5286ffa0dd5 - 0m17.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m17.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'show', '--no-all-versions', 'sra-toolkit'] 0m17.9s DUMP: Package: sra-toolkit Source: sra-sdk Version: 3.0.3+dfsg-6~deb12u1 Installed-Size: 17192 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbz2-1.0, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libhdf5-103-1, libmagic1 (>= 5.12), libncbi-vdb3 (>= 3.0.2+dfsg), libncbi-wvdb3 (>= 3.0.2+dfsg), libre2-9 (>= 20201101+dfsg), libssl3 (>= 3.0.0), libstdc++6 (>= 12), libxml2 (>= 2.7.4), zlib1g (>= 1:1.2.2) Recommends: med-config Description-en: utilities for the NCBI Sequence Read Archive Tools for reading the SRA archive, generally by converting individual runs into some commonly used format such as fastq. . The textual dumpers "sra-dump" and "vdb-dump" are provided in this release as an aid in visual inspection. It is likely that their actual output formatting will be changed in the near future to a stricter, more formalized representation[s]. PLEASE DO NOT RELY UPON THE OUTPUT FORMAT SEEN IN THIS RELEASE. . Other tools distributed in this package are: abi-dump, abi-load align-info bam-load cache-mgr cg-load copycat fasterq-dump fastq-dump, fastq-load helicos-load illumina-dump, illumina-load kar kdbmeta latf-load pacbio-load prefetch rcexplain remote-fuser sff-dump, sff-load sra-pileup, sra-sort, sra-stat, srapath srf-load test-sra vdb-config, vdb-copy, vdb-decrypt, vdb-encrypt, vdb-get, vdb-lock, vdb-passwd, vdb-unlock, vdb-validate . The "help" information will be improved in near future releases, and the tool options will become standardized across the set. More documentation will also be provided documentation on the NCBI web site. . Tool options may change in the next release. Version 1 tool options will remain supported wherever possible in order to preserve operation of any existing scripts. Description-md5: 1a61cd8ef6f417d5f86c6c13697e7a05 Homepage: https://github.com/ncbi/sra-tools/ Section: science Priority: optional Filename: pool/main/s/sra-sdk/sra-toolkit_3.0.3+dfsg-6~deb12u1_amd64.deb Size: 6755716 MD5sum: 03b8d093e35c3515a3b68d01f7725212 SHA256: e58bbbf503590c2a4cfdf98da42066330723aa6e46be95fd2b77c758fcbabce0 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'show', '--no-all-versions', 'sra-toolkit'] 0m17.9s INFO: apt-cache knows about the following packages: sra-toolkit 0m17.9s INFO: Running scripts pre_install 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_database-server'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_database-server'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_exceptions'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_exceptions'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_extras'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_extras'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy'] 0m18.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages release v=12-updates,o=Debian,a=proposed-updates,n=bookworm-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bookworm-updates/main amd64 Packages release v=12-updates,o=Debian,a=stable-updates,n=bookworm-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bookworm-security/main amd64 Packages release v=12,o=Debian,a=stable-security,n=bookworm-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy', 'sra-toolkit'] 0m18.0s DUMP: sra-toolkit: Installed: 3.0.3+dfsg-6~deb12u1 Candidate: 3.0.3+dfsg-6~deb12u1 Version table: *** 3.0.3+dfsg-6~deb12u1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy', 'sra-toolkit'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-y', 'install', 'sra-toolkit'] 0m18.4s DUMP: Reading package lists... Building dependency tree... Reading state information... sra-toolkit is already the newest version (3.0.3+dfsg-6~deb12u1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-y', 'install', 'sra-toolkit'] 0m18.4s INFO: Running scripts post_install 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_install_exceptions'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_install_exceptions'] 0m18.4s INFO: Running scripts post_distupgrade 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m18.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m18.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m19.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m19.3s INFO: Running scripts pre_install 0m19.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_database-server'] 0m19.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_database-server'] 0m19.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_exceptions'] 0m19.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_exceptions'] 0m19.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_extras'] 0m19.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_extras'] 0m19.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy'] 0m19.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages release v=12-updates,o=Debian,a=proposed-updates,n=bookworm-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bookworm-updates/main amd64 Packages release v=12-updates,o=Debian,a=stable-updates,n=bookworm-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bookworm-security/main amd64 Packages release v=12,o=Debian,a=stable-security,n=bookworm-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m19.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy'] 0m19.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy', 'sra-toolkit'] 0m19.4s DUMP: sra-toolkit: Installed: 3.0.3+dfsg-6~deb12u1 Candidate: 3.0.3+dfsg-6~deb12u1 Version table: *** 3.0.3+dfsg-6~deb12u1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 0m19.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-cache', 'policy', 'sra-toolkit'] 0m19.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-y', 'install', 'sra-toolkit=3.0.3+dfsg-6~deb12u1'] 0m19.8s DUMP: Reading package lists... Building dependency tree... Reading state information... sra-toolkit is already the newest version (3.0.3+dfsg-6~deb12u1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m19.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', '-y', 'install', 'sra-toolkit=3.0.3+dfsg-6~deb12u1'] 0m19.8s INFO: Running scripts post_install 0m19.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_install_exceptions'] 0m19.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_install_exceptions'] 0m19.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m20.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m20.3s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m20.3s INFO: /bin converted to /usr/bin by /usr merge 0m20.3s INFO: /lib converted to /usr/lib by /usr merge 0m20.3s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m20.3s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m20.3s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m20.3s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m20.3s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m20.3s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m20.3s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m20.3s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m20.3s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m20.3s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m20.3s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m20.3s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m20.3s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m20.3s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m20.3s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m20.3s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m20.3s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m20.3s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m20.3s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m20.3s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m20.3s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m20.3s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m20.3s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m20.3s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m20.3s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m20.3s INFO: /sbin converted to /usr/sbin by /usr merge 0m20.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', '-ac', '--ignore-obsolete'] 0m21.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', '-ac', '--ignore-obsolete'] 0m21.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m21.3s DUMP: 0.15.6 0m21.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m21.3s INFO: Running adequate version 0.15.6 now. 0m21.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'sra-toolkit'] 0m22.3s DUMP: sra-toolkit: broken-symlink /usr/lib/debian-med/bin/kget -> ../../../bin/vdb-get 0m22.3s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'sra-toolkit'] 0m22.3s ERROR: WARN: Inadequate results from running adequate! sra-toolkit: broken-symlink /usr/lib/debian-med/bin/kget -> ../../../bin/vdb-get 0m22.3s ERROR: WARN: Running adequate resulted in less interesting tags found: broken-symlink 0m22.3s INFO: Running scripts pre_remove 0m22.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_exceptions'] 0m23.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/pre_remove_exceptions'] 0m23.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.5s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u6 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libaec0:amd64 libaec0 1.0.6-1+b1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u8 install ok installed libc6:amd64 libc6 2.36-9+deb12u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libcurl4:amd64 libcurl4 7.88.1-10+deb12u6 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-2+deb12u2 install ok installed libhdf5-103-1:amd64 libhdf5-103-1 1.10.8+repack1-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libicu72:amd64 libicu72 72.1-3 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-2+deb12u2 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-2+deb12u2 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-2+deb12u2 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-5 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmagic-mgc libmagic-mgc 1:5.44-3 install ok installed libmagic1:amd64 libmagic1 1:5.44-3 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.3-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.3-1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.3-1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.0.2+dfsg-2 install ok installed libncbi-wvdb3:amd64 libncbi-wvdb3 3.0.2+dfsg-2 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.52.0-1+deb12u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libpsl5:amd64 libpsl5 0.21.2-1 install ok installed libre2-9:amd64 libre2-9 20220601+dfsg-1+b1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-10 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-10 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.13-1~deb12u2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.29-1~deb12u1 install ok installed libsz2:amd64 libsz2 1.0.6-1+b1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.29-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1.3~deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncbi-vdb-data ncbi-vdb-data 3.0.2+dfsg-2 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sra-toolkit sra-toolkit 3.0.3+dfsg-6~deb12u1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m23.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'remove', 'libaec0:amd64', 'libbrotli1:amd64', 'libcurl4:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-103-1:amd64', 'libicu72:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncbi-vdb3:amd64', 'libncbi-wvdb3:amd64', 'libnghttp2-14:amd64', 'libpsl5:amd64', 'libre2-9:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsz2:amd64', 'libxml2:amd64', 'ncbi-vdb-data', 'sra-toolkit'] 0m24.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: libaec0 libbrotli1 libcurl4 libgssapi-krb5-2 libhdf5-103-1 libicu72 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libmagic-mgc libmagic1 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncbi-vdb3 libncbi-wvdb3 libnghttp2-14 libpsl5 libre2-9 librtmp1 libsasl2-2 libsasl2-modules-db libssh2-1 libssl3 libsz2 libxml2 ncbi-vdb-data sra-toolkit 0 upgraded, 0 newly installed, 30 to remove and 0 not upgraded. After this operation, 89.1 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 ... 6476 files and directories currently installed.) Removing sra-toolkit (3.0.3+dfsg-6~deb12u1) ... Removing libhdf5-103-1:amd64 (1.10.8+repack1-1) ... Removing libsz2:amd64 (1.0.6-1+b1) ... Removing libaec0:amd64 (1.0.6-1+b1) ... Removing libcurl4:amd64 (7.88.1-10+deb12u6) ... Removing libbrotli1:amd64 (1.0.9-2+b6) ... Removing libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Removing libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Removing libicu72:amd64 (72.1-3) ... Removing libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Removing libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Removing libmagic1:amd64 (1:5.44-3) ... Removing libmagic-mgc (1:5.44-3) ... Removing libncbi-wvdb3:amd64 (3.0.2+dfsg-2) ... Removing libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Removing libmbedtls14:amd64 (2.28.3-1) ... Removing libmbedx509-1:amd64 (2.28.3-1) ... Removing libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Removing libpsl5:amd64 (0.21.2-1) ... Removing libre2-9:amd64 (20220601+dfsg-1+b1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-10) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing libssl3:amd64 (3.0.13-1~deb12u2) ... Removing ncbi-vdb-data (3.0.2+dfsg-2) ... Removing libmbedcrypto7:amd64 (2.28.3-1) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'remove', 'libaec0:amd64', 'libbrotli1:amd64', 'libcurl4:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-103-1:amd64', 'libicu72:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncbi-vdb3:amd64', 'libncbi-wvdb3:amd64', 'libnghttp2-14:amd64', 'libpsl5:amd64', 'libre2-9:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsz2:amd64', 'libxml2:amd64', 'ncbi-vdb-data', 'sra-toolkit'] 0m24.3s INFO: Running scripts post_remove 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_remove_exceptions'] 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_remove_exceptions'] 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--purge', 'libaec0:amd64', 'libbrotli1:amd64', 'libcurl4:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-103-1:amd64', 'libicu72:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncbi-vdb3:amd64', 'libncbi-wvdb3:amd64', 'libnghttp2-14:amd64', 'libpsl5:amd64', 'libre2-9:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsz2:amd64', 'libxml2:amd64', 'ncbi-vdb-data'] 0m24.3s DUMP: dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcurl4 which isn't installed (Reading database ... 6100 files and directories currently installed.) Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... dpkg: warning: ignoring request to remove libhdf5-103-1 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.44-3) ... dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 which isn't installed dpkg: warning: ignoring request to remove libncbi-wvdb3 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libre2-9 which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libssl3 which isn't installed dpkg: warning: ignoring request to remove libsz2 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove ncbi-vdb-data which isn't installed 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--purge', 'libaec0:amd64', 'libbrotli1:amd64', 'libcurl4:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-103-1:amd64', 'libicu72:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncbi-vdb3:amd64', 'libncbi-wvdb3:amd64', 'libnghttp2-14:amd64', 'libpsl5:amd64', 'libre2-9:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsz2:amd64', 'libxml2:amd64', 'ncbi-vdb-data'] 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--purge', 'sra-toolkit'] 0m24.3s DUMP: (Reading database ... 6098 files and directories currently installed.) Purging configuration files for sra-toolkit (3.0.3+dfsg-6~deb12u1) ... 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--purge', 'sra-toolkit'] 0m24.3s INFO: Running scripts post_purge 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_purge_exceptions'] 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_purge_exceptions'] 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--purge', '--pending'] 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--purge', '--pending'] 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--remove', '--pending'] 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg', '--remove', '--pending'] 0m24.3s INFO: Running scripts post_test 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_test_exceptions'] 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'tmp/scripts/post_test_exceptions'] 0m24.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m24.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m24.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg-divert', '--list'] 0m24.7s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged 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 local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m24.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'dpkg-divert', '--list'] 0m24.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'clean'] 0m24.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl35bnga4', 'apt-get', 'clean'] 0m24.7s DEBUG: Recording chroot state 0m25.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/shm'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/shm'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/console'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/console'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/ptmx'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/ptmx'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/pts'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/dev/pts'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/proc'] 0m25.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl35bnga4/proc'] 0m25.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m26.0s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpl35bnga4'] 0m26.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpl35bnga4 0m26.0s INFO: PASS: Upgrading between Debian distributions. 0m26.0s INFO: PASS: All tests. 0m26.0s INFO: piuparts run ends. ret=0 End: 2024-08-21 20:18:03 GMT