Start: 2025-12-01 11:05:13 GMT [oldstable] Package: macsyfinder Source: macsyfinder (2.0-2) Version: 2.0-2+b1 Installed-Size: 31261 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-sphinxdoc (>= 5.2), sphinx-rtd-theme-common (>= 1.2.0+dfsg), hmmer, ncbi-blast+, libjs-jquery, libjs-underscore Description: detection of macromolecular systems in protein datasets Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 5.3.0-4) Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.0-2+b1_amd64.deb Size: 12092624 MD5sum: eb2d3d59d82ebdf420a1f0583065830c SHA256: 4073d3a7cf9c56dc97a438914d67d8712235a6b16eb4dddc61b03e3da08013ea [stable] Package: macsyfinder Source: macsyfinder (2.1.4-1) Version: 2.1.4-1+b2 Installed-Size: 37591 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-jquery (>= 3.6.0), libjs-sphinxdoc (>= 8.1), sphinx-rtd-theme-common (>= 3.0.2+dfsg), hmmer, ncbi-blast+, libjs-underscore Description: detection of macromolecular systems in protein datasets Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 8.1.3-5) Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.1.4-1+b2_amd64.deb Size: 14537468 MD5sum: bae9b6f7a0b6098a47d01d491740a84b SHA256: c908281d201e271802f78742a02815a7e54fb39b775f947633235cc461a58609 [testing] Package: macsyfinder Source: macsyfinder (2.1.4-1) Version: 2.1.4-1+b2 Installed-Size: 37591 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-jquery (>= 3.6.0), libjs-sphinxdoc (>= 8.1), sphinx-rtd-theme-common (>= 3.0.2+dfsg), hmmer, ncbi-blast+, libjs-underscore Description: detection of macromolecular systems in protein datasets Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 8.1.3-5) Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.1.4-1+b2_amd64.deb Size: 14537468 MD5sum: bae9b6f7a0b6098a47d01d491740a84b SHA256: c908281d201e271802f78742a02815a7e54fb39b775f947633235cc461a58609 [sid] Package: macsyfinder Source: macsyfinder (2.1.4-1) Version: 2.1.4-1+b3 Installed-Size: 37541 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-jquery (>= 3.6.0), libjs-sphinxdoc (>= 8.2), sphinx-rtd-theme-common (>= 3.0.2+dfsg), hmmer, ncbi-blast+, libjs-underscore Description: detection of macromolecular systems in protein datasets Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 8.2.3-10) Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.1.4-1+b3_amd64.deb Size: 14490328 MD5sum: 7f8ad8fdb7a99806dd3ddf3c18ce1c12 SHA256: 1eda3ad64775b04667c7691b1d9dca57660b2b9ff4f30e61e32e57f57a0eee1f Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d oldstable -d stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/oldstable222sid/reference-chroot-metadata.dat --apt macsyfinder=2.1.4-1+b3 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 1.6.1~202508211856~1.6.0-10-gffba2cce starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/bin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d oldstable -d stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/oldstable222sid/reference-chroot-metadata.dat --apt macsyfinder=2.1.4-1+b3 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 6.1.0-41-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.158-1 (2025-11-09) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpvm0xqior 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpvm0xqior 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/proc'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/pts'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/pts'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/ptmx'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/ptmx'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/console'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/console'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/shm'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/shm'] 0m0.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m0.4s DEBUG: Created policy-rc.d and chmodded it. 0m0.4s DEBUG: Created resolv.conf. 0m0.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpvm0xqior/tmp/scripts/ 0m0.4s INFO: Running scripts post_chroot_unpack 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 0m1.4s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 0m1.8s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.1s DUMP: 7ec3a68e34ef928e31b3b606406d4b66 - 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.1s INFO: Running scripts post_setup 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_dummy_users'] 0m3.3s 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 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_dummy_users'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_forbid_home'] 0m3.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_forbid_home'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.3s 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' 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_minimize'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_minimize'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_zz_backports'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_setup_zz_backports'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.3s 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+deb12u12 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b9 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u3 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+deb12u2 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+b2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14+deb12u1 install ok installed gpgv gpgv 2.2.40-1.1+deb12u1 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+deb12u1 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+deb12u3 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+deb12u13 install ok installed libc6:amd64 libc6 2.36-9+deb12u13 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4+deb12u2 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2+b2 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+b2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14+deb12u1 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+deb12u5 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 5.4.1-1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u3 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+deb12u3 install ok installed libss2:amd64 libss2 1.47.0-2+b2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14+deb12u1 install ok installed libsystemd0:amd64 libsystemd0 252.39-1~deb12u1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2+deb12u1 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.39-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u3 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+deb12u1 install ok installed logsave logsave 1.47.0-2+b2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u3 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+deb12u1 install ok installed perl-base perl-base 5.36.0-7+deb12u3 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 2025b-0+deb12u2 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u3 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u3 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.3s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/oldstable222sid/reference-chroot-metadata.dat 0m3.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 0m3.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 0m3.9s INFO: Running scripts is_testable 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/is_testable_uninstallable'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/is_testable_uninstallable'] 0m3.9s INFO: Running scripts pre_test 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_test_exceptions'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_test_exceptions'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_test_root_password'] 0m3.9s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_test_root_password'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 0m4.1s DUMP: Package: macsyfinder Source: macsyfinder (2.0-2) Version: 2.0-2+b1 Installed-Size: 31261 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-sphinxdoc (>= 5.2), sphinx-rtd-theme-common (>= 1.2.0+dfsg), hmmer, ncbi-blast+, libjs-jquery, libjs-underscore Description-en: detection of macromolecular systems in protein datasets MacSyFinder is a program to model and detect macromolecular systems, genetic pathways... in protein datasets. In prokaryotes, these systems have often evolutionarily conserved properties: they are made of conserved components, and are encoded in compact loci (conserved genetic architecture). The user models these systems with MacSyFinder to reflect these conserved features, and to allow their efficient detection . This package presents the Open Source Java API to biological databases and a series of mostly sequence-based algorithms. Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 5.3.0-4) Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.0-2+b1_amd64.deb Size: 12092624 MD5sum: eb2d3d59d82ebdf420a1f0583065830c SHA256: 4073d3a7cf9c56dc97a438914d67d8712235a6b16eb4dddc61b03e3da08013ea 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 0m4.1s INFO: apt-cache knows about the following packages: macsyfinder 0m4.1s INFO: Running scripts pre_install 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 0m4.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.12,o=Debian,a=oldstable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 0m4.2s DUMP: macsyfinder: Installed: (none) Candidate: 2.0-2+b1 Version table: 2.0-2+b1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 0m27.7s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates fonts-font-awesome fonts-lato hmmer libblas3 libdivsufsort3 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libpcre3 libperl5.36 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 libsqlite3-0 libssl3 libtirpc-common libtirpc3 libyaml-0-2 media-types ncbi-blast+ ncbi-data openssl perl perl-modules-5.36 python3 python3-certifi python3-colorama python3-colorlog python3-dateutil python3-minimal python3-networkx python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-six python3-tz python3-yaml python3.11 python3.11-minimal readline-common sphinx-rtd-theme-common Suggested packages: hmmer-doc gdbm-l10n krb5-doc krb5-user sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv gcc gfortran python3-dev python3-pytest python-pandas-doc python3-statsmodels python3-setuptools python3.11-venv python3.11-doc binutils binfmt-support readline-doc Recommended packages: javascript-common krb5-locales libgpm2 netbase python3-gdal python3-matplotlib python3-pydot python3-pygraphviz python3-scipy python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables python3-jinja2 python3-numba The following NEW packages will be installed: ca-certificates fonts-font-awesome fonts-lato hmmer libblas3 libdivsufsort3 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libpcre3 libperl5.36 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 libsqlite3-0 libssl3 libtirpc-common libtirpc3 libyaml-0-2 macsyfinder media-types ncbi-blast+ ncbi-data openssl perl perl-modules-5.36 python3 python3-certifi python3-colorama python3-colorlog python3-dateutil python3-minimal python3-networkx python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-six python3-tz python3-yaml python3.11 python3.11-minimal readline-common sphinx-rtd-theme-common 0 upgraded, 64 newly installed, 0 to remove and 0 not upgraded. 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http://deb.debian.org/debian bookworm/main amd64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 ncbi-blast+ amd64 2.12.0+ds-3+b1 [11.9 MB] Get:64 http://deb.debian.org/debian bookworm/main amd64 macsyfinder amd64 2.0-2+b1 [12.1 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 70.0 MB in 2s (30.5 MB/s) Selecting previously unselected package perl-modules-5.36. (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 ... 6099 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.36_5.36.0-7+deb12u3_all.deb ... Unpacking perl-modules-5.36 (5.36.0-7+deb12u3) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Preparing to unpack .../08-libgfortran5_12.2.0-14+deb12u1_amd64.deb ... Unpacking libgfortran5:amd64 (12.2.0-14+deb12u1) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../09-libgomp1_12.2.0-14+deb12u1_amd64.deb ... Unpacking libgomp1:amd64 (12.2.0-14+deb12u1) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../10-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../11-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../12-libjs-sphinxdoc_5.3.0-4_all.deb ... Unpacking libjs-sphinxdoc (5.3.0-4) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../13-liblapack3_3.11.0-2_amd64.deb ... Unpacking liblapack3:amd64 (3.11.0-2) ... Selecting previously unselected package liblmdb0:amd64. Preparing to unpack .../14-liblmdb0_0.9.24-1_amd64.deb ... Unpacking liblmdb0:amd64 (0.9.24-1) ... Selecting previously unselected package libmbedcrypto7:amd64. Preparing to unpack .../15-libmbedcrypto7_2.28.3-1_amd64.deb ... Unpacking libmbedcrypto7:amd64 (2.28.3-1) ... Selecting previously unselected package libmbedx509-1:amd64. Preparing to unpack .../16-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 .../17-libmbedtls14_2.28.3-1_amd64.deb ... Unpacking libmbedtls14:amd64 (2.28.3-1) ... Selecting previously unselected package libpcre3:amd64. Preparing to unpack .../18-libpcre3_2%3a8.39-15_amd64.deb ... Unpacking libpcre3:amd64 (2:8.39-15) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../19-libyaml-0-2_0.2.5-1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.5-1) ... Selecting previously unselected package python3-certifi. Preparing to unpack .../20-python3-certifi_2022.9.24-1_all.deb ... Unpacking python3-certifi (2022.9.24-1) ... Selecting previously unselected package python3-colorama. Preparing to unpack .../21-python3-colorama_0.4.6-2_all.deb ... Unpacking python3-colorama (0.4.6-2) ... Selecting previously unselected package python3-colorlog. Preparing to unpack .../22-python3-colorlog_6.7.0-1_all.deb ... Unpacking python3-colorlog (6.7.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../23-python3-pkg-resources_66.1.1-1+deb12u2_all.deb ... Unpacking python3-pkg-resources (66.1.1-1+deb12u2) ... Selecting previously unselected package python3-networkx. Preparing to unpack .../24-python3-networkx_2.8.8-1_all.deb ... Unpacking python3-networkx (2.8.8-1) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../25-python3-packaging_23.0-1_all.deb ... Unpacking python3-packaging (23.0-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../26-python3-six_1.16.0-4_all.deb ... Unpacking python3-six (1.16.0-4) ... Selecting previously unselected package python3-dateutil. Preparing to unpack .../27-python3-dateutil_2.8.2-2_all.deb ... Unpacking python3-dateutil (2.8.2-2) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../28-python3-numpy_1%3a1.24.2-1+deb12u1_amd64.deb ... Unpacking python3-numpy (1:1.24.2-1+deb12u1) ... Selecting previously unselected package python3-tz. Preparing to unpack .../29-python3-tz_2022.7.1-4_all.deb ... Unpacking python3-tz (2022.7.1-4) ... Selecting previously unselected package python3-pandas-lib:amd64. Preparing to unpack .../30-python3-pandas-lib_1.5.3+dfsg-2_amd64.deb ... Unpacking python3-pandas-lib:amd64 (1.5.3+dfsg-2) ... Selecting previously unselected package python3-pandas. Preparing to unpack .../31-python3-pandas_1.5.3+dfsg-2_all.deb ... Unpacking python3-pandas (1.5.3+dfsg-2) ... Selecting previously unselected package python3-yaml. Preparing to unpack .../32-python3-yaml_6.0-3+b2_amd64.deb ... Unpacking python3-yaml (6.0-3+b2) ... Selecting previously unselected package sphinx-rtd-theme-common. Preparing to unpack .../33-sphinx-rtd-theme-common_1.2.0+dfsg-1_all.deb ... Unpacking sphinx-rtd-theme-common (1.2.0+dfsg-1) ... Selecting previously unselected package ncbi-data. Preparing to unpack .../34-ncbi-data_6.1.20170106+dfsg1-10_all.deb ... Unpacking ncbi-data (6.1.20170106+dfsg1-10) ... Selecting previously unselected package ncbi-blast+. Preparing to unpack .../35-ncbi-blast+_2.12.0+ds-3+b1_amd64.deb ... Unpacking ncbi-blast+ (2.12.0+ds-3+b1) ... Selecting previously unselected package macsyfinder. Preparing to unpack .../36-macsyfinder_2.0-2+b1_amd64.deb ... Unpacking macsyfinder (2.0-2+b1) ... Setting up media-types (10.0.0) ... Setting up liblmdb0:amd64 (0.9.24-1) ... Setting up ncbi-data (6.1.20170106+dfsg1-10) ... Setting up libkeyutils1:amd64 (1.6.3-2) ... Setting up fonts-lato (2.0-2.1) ... Setting up libyaml-0-2:amd64 (0.2.5-1) ... Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libsqlite3-0:amd64 (3.40.1-2+deb12u2) ... Setting up libgomp1:amd64 (12.2.0-14+deb12u1) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u4) ... Setting up libpcre3:amd64 (2:8.39-15) ... Setting up perl-modules-5.36 (5.36.0-7+deb12u3) ... Setting up libblas3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libmbedcrypto7:amd64 (2.28.3-1) ... Setting up libquadmath0:amd64 (12.2.0-14+deb12u1) ... Setting up libncursesw6:amd64 (6.4-4) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u4) ... Setting up libgfortran5:amd64 (12.2.0-14+deb12u1) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u4) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libdivsufsort3:amd64 (2.0.1-5) ... Setting up openssl (3.0.17-1~deb12u2) ... Setting up readline-common (8.2-1.3) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up sphinx-rtd-theme-common (1.2.0+dfsg-1) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up ca-certificates (20230311+deb12u1) ... Updating certificates in /etc/ssl/certs... 142 added, 0 removed; done. Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u4) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up hmmer (3.3.2+dfsg-1) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u3) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up perl (5.36.0-7+deb12u3) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6+deb12u6) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6+deb12u6) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-tz (2022.7.1-4) ... Setting up ncbi-blast+ (2.12.0+ds-3+b1) ... Setting up python3-six (1.16.0-4) ... Setting up python3-packaging (23.0-1) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up python3-pkg-resources (66.1.1-1+deb12u2) ... Setting up python3-colorama (0.4.6-2) ... Setting up python3-colorlog (6.7.0-1) ... Setting up python3-yaml (6.0-3+b2) ... Setting up python3-networkx (2.8.8-1) ... Setting up python3-numpy (1:1.24.2-1+deb12u1) ... Setting up python3-pandas-lib:amd64 (1.5.3+dfsg-2) ... Setting up python3-pandas (1.5.3+dfsg-2) ... Setting up macsyfinder (2.0-2+b1) ... Processing triggers for libc-bin (2.36-9+deb12u13) ... Processing triggers for ca-certificates (20230311+deb12u1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m27.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 0m27.8s INFO: Running scripts post_install 0m27.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 0m27.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 0m28.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 0m28.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpvm0xqior to stable 0m28.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m28.9s INFO: Running scripts pre_distupgrade 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 0m32.5s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [140 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9670 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6484 kB] Fetched 16.3 MB in 3s (5854 kB/s) Reading package lists... 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 1m17.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libnsl2 libpcre3 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3-six python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libdb5.3 libext2fs2 libgdbm-compat4 libgdbm6 libhogweed6 libnettle8 libreadline8 libssl3 libtirpc3 The following NEW packages will be installed: gcc-14-base libapt-pkg7.0 libbsd0 libdb5.3t64 libext2fs2t64 libgdbm-compat4t64 libgdbm6t64 libhogweed6t64 liblastlog2-2 libmbedcrypto16 libmbedtls21 libmbedx509-7 libncbi-vdb3 libnettle8t64 libnghttp2-14 libperl5.40 libpython3.13-minimal libpython3.13-stdlib libreadline8t64 libssl3t64 libtirpc3t64 libunistring5 libuv1t64 login.defs ncbi-vdb-data netbase openssl-provider-legacy perl-modules-5.40 python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-more-itertools python3-numpy-dev python3-pytz python3-typeguard python3-typing-extensions python3.13 python3.13-minimal sqv The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils ca-certificates coreutils dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils fonts-lato gcc-12-base gpgv grep gzip hmmer hostname init-system-helpers libacl1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libbz2-1.0 libc-bin libc6 libcap-ng0 libcap2 libcom-err2 libcrypt1 libdebconfclient0 libdivsufsort3 libexpat1 libffi8 libgcc-s1 libgcrypt20 libgfortran5 libgmp10 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libjs-sphinxdoc libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 liblz4-1 liblzma5 libmd0 libmount1 libncursesw6 libnsl2 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpython3-stdlib libquadmath0 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtirpc-common libudev1 libuuid1 libxxhash0 libyaml-0-2 libzstd1 login logsave macsyfinder mawk media-types mount ncbi-blast+ ncbi-data ncurses-base ncurses-bin openssl passwd perl perl-base python3 python3-certifi python3-colorama python3-colorlog python3-dateutil python3-minimal python3-networkx python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-six python3-tz python3-yaml readline-common sed sphinx-rtd-theme-common sysvinit-utils tar tzdata usr-is-merged util-linux util-linux-extra zlib1g 127 upgraded, 40 newly installed, 9 to remove and 0 not upgraded. Need to get 125 MB of archives. After this operation, 203 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 base-files amd64 13.8+deb13u2 [73.2 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libc6 amd64 2.41-12 [2846 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libc-bin amd64 2.41-12 [637 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 gcc-14-base amd64 14.2.0-19 [49.4 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libgcc-s1 amd64 14.2.0-19 [72.8 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 debianutils amd64 5.23.2 [92.4 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 bash amd64 5.2.37-2+b5 [1500 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libcap2 amd64 1:2.75-10+b1 [28.8 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libsystemd0 amd64 257.9-1~deb13u1 [453 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.41-5 [110 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libgmp10 amd64 2:6.3.0+dfsg-3 [560 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libzstd1 amd64 1.5.7+dfsg-1 [304 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.5.4-1~deb13u1 [1495 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get:20 http://deb.debian.org/debian trixie/main amd64 openssl-provider-legacy amd64 3.5.4-1~deb13u1 [308 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libssl3t64 amd64 3.5.4-1~deb13u1 [2441 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1+b1 [88.9 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 coreutils amd64 9.7-3 [3024 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 dash amd64 0.5.12-12 [98.5 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 diffutils amd64 1:3.10-4 [387 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 tar amd64 1.35+dfsg-3.1 [815 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 dpkg amd64 1.22.21 [1538 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 grep amd64 3.11-4 [431 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 gzip amd64 1.13-1 [138 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 hostname amd64 3.25 [11.0 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 login.defs all 1:4.17.4-2 [186 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-9 [704 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libaudit-common all 1:4.0.2-2 [12.7 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libcap-ng0 amd64 0.8.5-4+b1 [17.6 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libaudit1 amd64 1:4.0.2-2+b2 [55.1 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libcrypt1 amd64 1:4.4.38-1 [90.1 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 perl-modules-5.40 all 5.40.1-6 [3019 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libperl5.40 amd64 5.40.1-6 [4341 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 perl amd64 5.40.1-6 [267 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 perl-base amd64 5.40.1-6 [1666 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libbz2-1.0 amd64 1.0.8-6 [37.9 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 debconf all 1.5.91 [121 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libpam0g amd64 1.7.0-5 [69.9 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libpcre2-8-0 amd64 10.46-1~deb13u1 [299 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libselinux1 amd64 3.8.1-1 [84.7 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libpam-modules-bin amd64 1.7.0-5 [49.1 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libpam-modules amd64 1.7.0-5 [179 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libpam-runtime all 1.7.0-5 [249 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.16.0-2+really2.41-5 [112 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 libncursesw6 amd64 6.5+20250216-2 [135 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libtinfo6 amd64 6.5+20250216-2 [348 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 ncurses-bin amd64 6.5+20250216-2 [438 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 sed amd64 4.9-2 [329 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.41-5 [171 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libsqlite3-0 amd64 3.46.1-7 [914 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 liblastlog2-2 amd64 2.41-5 [28.5 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.41-5 [209 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.41-5 [143 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.41-5 [37.6 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.41-5 [1235 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 util-linux-extra amd64 2.41-5 [300 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libnettle8t64 amd64 3.10.1-1 [305 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 libhogweed6t64 amd64 3.10.1-1 [335 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 sqv amd64 1.3.0-3 [661 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 libstdc++6 amd64 14.2.0-19 [714 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 libxxhash0 amd64 0.8.3-2 [27.1 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 liblz4-1 amd64 1.10.0-4 [63.9 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 liblzma5 amd64 5.8.1-1 [309 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libudev1 amd64 257.9-1~deb13u1 [152 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 libapt-pkg7.0 amd64 3.0.3 [1113 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.280 [10.6 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 base-passwd amd64 3.6.7 [53.7 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libmd0 amd64 1.1.0-2+b1 [36.3 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libbsd0 amd64 0.12.2-2 [131 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libacl1 amd64 2.3.2-2+b1 [32.9 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libattr1 amd64 1:2.5.2-3 [22.9 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libsemanage-common all 3.8.1-1 [7812 B] Get:81 http://deb.debian.org/debian trixie/main amd64 libsepol2 amd64 3.8.1-1 [296 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libsemanage2 amd64 3.8.1-1 [95.3 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 passwd amd64 1:4.17.4-2 [1229 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 adduser all 3.152 [191 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 debian-archive-keyring all 2025.1 [179 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libseccomp2 amd64 2.6.0-2 [51.7 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 apt amd64 3.0.3 [1452 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 init-system-helpers all 1.69~deb13u1 [39.4 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 ncurses-base all 6.5+20250216-2 [273 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 sysvinit-utils amd64 3.14-4 [34.1 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 logsave amd64 1.47.2-3+b3 [24.9 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 libext2fs2t64 amd64 1.47.2-3+b3 [213 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 e2fsprogs amd64 1.47.2-3+b3 [591 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-6 [69.4 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-6 [169 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.6+ds-1 [11.0 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.6+ds-1 [83.3 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.41-5 [162 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 fonts-lato all 2.015-1 [2780 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.7.1-2 [108 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 libpython3.13-minimal amd64 3.13.5-2 [862 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 python3.13-minimal amd64 3.13.5-2 [2224 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 python3-yaml amd64 6.0.2-1+b2 [136 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-9 [4595 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 python3-pandas all 2.2.3+dfsg-9 [3097 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 python3-numpy amd64 1:2.2.4+ds-1 [5096 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.13.5-1 [27.2 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.13.5-1 [28.2 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 libyaml-0-2 amd64 0.2.5-2 [52.5 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 python3-numpy-dev amd64 1:2.2.4+ds-1 [139 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.1-6 [160 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-19 [836 kB] Get:114 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.1-6 [2447 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 tzdata all 2025b-4+deb13u1 [260 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 python3-dateutil all 2.9.0-4 [79.4 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 python3-tz all 2025.2-3 [4280 B] Get:118 http://deb.debian.org/debian trixie/main amd64 python3-pytz all 2025.2-3 [152 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 media-types all 13.0.0 [29.3 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 netbase all 6.5 [12.4 kB] Get:121 http://deb.debian.org/debian trixie/main 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python3-autocommand all 2.2.2-3 [13.6 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.7.0-1 [67.4 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get:156 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.4.2-1 [37.3 kB] Get:157 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get:158 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get:159 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get:160 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get:161 http://deb.debian.org/debian trixie/main amd64 python3-networkx all 3.2.1-5 [13.0 MB] Get:162 http://deb.debian.org/debian trixie/main amd64 python3-packaging all 25.0-1 [56.6 kB] Get:163 http://deb.debian.org/debian trixie/main amd64 sphinx-rtd-theme-common all 3.0.2+dfsg-2 [1023 kB] Get:164 http://deb.debian.org/debian trixie/main amd64 ncbi-data all 6.1.20170106+dfsg2-6 [3541 kB] Get:165 http://deb.debian.org/debian trixie/main amd64 ncbi-blast+ amd64 2.16.0+ds-7 [16.0 MB] Get:166 http://deb.debian.org/debian trixie/main amd64 macsyfinder amd64 2.1.4-1+b2 [14.5 MB] Get:167 http://deb.debian.org/debian trixie/main amd64 python3-six all 1.17.0-1 [16.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 125 MB in 4s (32.9 MB/s) (Reading database ... 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(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 ... 14085 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.41-5_amd64.deb ... Unpacking bsdutils (1:2.41-5) over (1:2.38.1-5+deb12u3) ... Setting up bsdutils (1:2.41-5) ... (Reading database ... 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(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 ... 14086 files and directories currently installed.) Preparing to unpack .../libzstd1_1.5.7+dfsg-1_amd64.deb ... Unpacking libzstd1:amd64 (1.5.7+dfsg-1) over (1.5.4+dfsg2-5) ... Setting up libzstd1:amd64 (1.5.7+dfsg-1) ... (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 ... 14086 files and directories currently installed.) Preparing to unpack .../0-openssl_3.5.4-1~deb13u1_amd64.deb ... Unpacking openssl (3.5.4-1~deb13u1) over (3.0.17-1~deb12u2) ... Preparing to unpack .../1-libgssapi-krb5-2_1.21.3-5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) over (1.20.1-2+deb12u4) ... Preparing to unpack .../2-libkrb5-3_1.21.3-5_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-5) over (1.20.1-2+deb12u4) ... Preparing to unpack .../3-libk5crypto3_1.21.3-5_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-5) over (1.20.1-2+deb12u4) ... Preparing to unpack .../4-libkrb5support0_1.21.3-5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-5) over (1.20.1-2+deb12u4) ... Preparing to unpack .../5-libcom-err2_1.47.2-3+b3_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-3+b3) over (1.47.0-2+b2) ... Preparing to unpack .../6-libkeyutils1_1.6.3-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-6) over (1.6.3-2) ... dpkg: libssl3:amd64: dependency problems, but removing anyway as you requested: libpython3.11-minimal:amd64 depends on libssl3 (>= 3.0.0). (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 ... 14166 files and directories currently installed.) Removing libssl3:amd64 (3.0.17-1~deb12u2) ... Selecting previously unselected package openssl-provider-legacy. (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 ... 14154 files and directories currently installed.) Preparing to unpack .../openssl-provider-legacy_3.5.4-1~deb13u1_amd64.deb ... Unpacking openssl-provider-legacy (3.5.4-1~deb13u1) ... Selecting previously unselected package libssl3t64:amd64. Preparing to unpack .../libssl3t64_3.5.4-1~deb13u1_amd64.deb ... Unpacking libssl3t64:amd64 (3.5.4-1~deb13u1) ... Setting up libssl3t64:amd64 (3.5.4-1~deb13u1) ... Setting up openssl-provider-legacy (3.5.4-1~deb13u1) ... (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 ... 14172 files and directories currently installed.) Preparing to unpack .../zlib1g_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g:amd64 (1:1.3.dfsg+really1.3.1-1+b1) over (1:1.2.13.dfsg-1) ... Setting up zlib1g:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... (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 ... 14173 files and directories currently installed.) Preparing to unpack .../coreutils_9.7-3_amd64.deb ... Unpacking coreutils (9.7-3) over (9.1-1) ... Setting up coreutils (9.7-3) ... (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 ... 14177 files and directories currently installed.) Preparing to unpack .../dash_0.5.12-12_amd64.deb ... Unpacking dash (0.5.12-12) over (0.5.12-2) ... Setting up dash (0.5.12-12) ... Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' (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 ... 14174 files and directories currently installed.) Preparing to unpack .../diffutils_1%3a3.10-4_amd64.deb ... Unpacking diffutils (1:3.10-4) over (1:3.8-4) ... Setting up diffutils (1:3.10-4) ... (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 ... 14176 files and directories currently installed.) Preparing to unpack .../tar_1.35+dfsg-3.1_amd64.deb ... Unpacking tar (1.35+dfsg-3.1) over (1.34+dfsg-1.2+deb12u1) ... Setting up tar (1.35+dfsg-3.1) ... (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 ... 14177 files and directories currently installed.) Preparing to unpack .../dpkg_1.22.21_amd64.deb ... Unpacking dpkg (1.22.21) over (1.21.22) ... Setting up dpkg (1.22.21) ... (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 ... 14162 files and directories currently installed.) Preparing to unpack .../findutils_4.10.0-3_amd64.deb ... Unpacking findutils (4.10.0-3) over (4.9.0-4) ... Setting up findutils (4.10.0-3) ... (Reading database ... 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(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 ... 14160 files and directories currently installed.) Preparing to unpack .../hostname_3.25_amd64.deb ... Unpacking hostname (3.25) over (3.23+nmu1) ... Setting up hostname (3.25) ... Selecting previously unselected package login.defs. (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 ... 14160 files and directories currently installed.) Preparing to unpack .../login.defs_1%3a4.17.4-2_all.deb ... Unpacking login.defs (1:4.17.4-2) ... Replacing files in old package login (1:4.13+dfsg1-1+deb12u1) ... Setting up login.defs (1:4.17.4-2) ... Installing new version of config file /etc/login.defs ... dpkg: libdb5.3:amd64: dependency problems, but removing anyway as you requested: libpython3.11-stdlib:amd64 depends on libdb5.3. libperl5.36:amd64 depends on libdb5.3. libpam-modules:amd64 depends on libdb5.3. (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 ... 14165 files and directories currently installed.) Removing libdb5.3:amd64 (5.3.28+dfsg2-1) ... Selecting previously unselected package libdb5.3t64: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 ... 14159 files and directories currently installed.) Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-9_amd64.deb ... Unpacking libdb5.3t64:amd64 (5.3.28+dfsg2-9) ... Setting up libdb5.3t64:amd64 (5.3.28+dfsg2-9) ... (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 ... 14165 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a4.0.2-2_all.deb ... Unpacking libaudit-common (1:4.0.2-2) over (1:3.0.9-1) ... Setting up libaudit-common (1:4.0.2-2) ... (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 ... 14165 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.5-4+b1_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.5-4+b1) over (0.8.3-1+b3) ... Setting up libcap-ng0:amd64 (0.8.5-4+b1) ... (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 ... 14165 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a4.0.2-2+b2_amd64.deb ... Unpacking libaudit1:amd64 (1:4.0.2-2+b2) over (1:3.0.9-1) ... Setting up libaudit1:amd64 (1:4.0.2-2+b2) ... (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 ... 14166 files and directories currently installed.) Preparing to unpack .../libcrypt1_1%3a4.4.38-1_amd64.deb ... Unpacking libcrypt1:amd64 (1:4.4.38-1) over (1:4.4.33-2) ... Setting up libcrypt1:amd64 (1:4.4.38-1) ... (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 ... 14166 files and directories currently installed.) Preparing to unpack .../perl_5.40.1-6_amd64.deb ... Unpacking perl (5.40.1-6) over (5.36.0-7+deb12u3) ... Selecting previously unselected package perl-modules-5.40. Preparing to unpack .../perl-modules-5.40_5.40.1-6_all.deb ... Unpacking perl-modules-5.40 (5.40.1-6) ... dpkg: libgdbm6:amd64: dependency problems, but removing anyway as you requested: libperl5.36:amd64 depends on libgdbm6 (>= 1.21). libgdbm-compat4:amd64 depends on libgdbm6 (>= 1.16). (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 ... 15729 files and directories currently installed.) Removing libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm6t64: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 ... 15723 files and directories currently installed.) Preparing to unpack .../libgdbm6t64_1.24-2_amd64.deb ... Unpacking libgdbm6t64:amd64 (1.24-2) ... dpkg: libgdbm-compat4:amd64: dependency problems, but removing anyway as you requested: libperl5.36:amd64 depends on libgdbm-compat4 (>= 1.18-3). (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 ... 15730 files and directories currently installed.) Removing libgdbm-compat4:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4t64: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 ... 15724 files and directories currently installed.) Preparing to unpack .../libgdbm-compat4t64_1.24-2_amd64.deb ... Unpacking libgdbm-compat4t64:amd64 (1.24-2) ... Selecting previously unselected package libperl5.40:amd64. Preparing to unpack .../libperl5.40_5.40.1-6_amd64.deb ... Unpacking libperl5.40:amd64 (5.40.1-6) ... Preparing to unpack .../perl-base_5.40.1-6_amd64.deb ... Unpacking perl-base (5.40.1-6) over (5.36.0-7+deb12u3) ... Setting up perl-base (5.40.1-6) ... (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 ... 16255 files and directories currently installed.) Preparing to unpack .../libbz2-1.0_1.0.8-6_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.8-6) over (1.0.8-5+b1) ... Setting up libbz2-1.0:amd64 (1.0.8-6) ... (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 ... 16254 files and directories currently installed.) Preparing to unpack .../debconf_1.5.91_all.deb ... Unpacking debconf (1.5.91) over (1.5.82) ... Setting up debconf (1.5.91) ... Installing new version of config file /etc/debconf.conf ... (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 ... 16253 files and directories currently installed.) Preparing to unpack .../libpam0g_1.7.0-5_amd64.deb ... Unpacking libpam0g:amd64 (1.7.0-5) over (1.5.2-6+deb12u1) ... Setting up libpam0g:amd64 (1.7.0-5) ... (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 ... 16252 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.46-1~deb13u1_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.46-1~deb13u1) over (10.42-1) ... Setting up libpcre2-8-0:amd64 (10.46-1~deb13u1) ... (Reading database ... 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(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 ... 16252 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.7.0-5_amd64.deb ... Unpacking libpam-modules-bin (1.7.0-5) over (1.5.2-6+deb12u1) ... Setting up libpam-modules-bin (1.7.0-5) ... (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 ... 16243 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.7.0-5_amd64.deb ... Unpacking libpam-modules:amd64 (1.7.0-5) over (1.5.2-6+deb12u1) ... dpkg: warning: unable to delete old directory '/lib/x86_64-linux-gnu/security': Directory not empty Setting up libpam-modules:amd64 (1.7.0-5) ... Installing new version of config file /etc/security/access.conf ... Installing new version of config file /etc/security/namespace.init ... (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 ... 16192 files and directories currently installed.) Preparing to unpack .../libpam-runtime_1.7.0-5_all.deb ... Unpacking libpam-runtime (1.7.0-5) over (1.5.2-6+deb12u1) ... Setting up libpam-runtime (1.7.0-5) ... (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 ... 16252 files and directories currently installed.) Preparing to unpack .../login_1%3a4.16.0-2+really2.41-5_amd64.deb ... Unpacking login (1:4.16.0-2+really2.41-5) over (1:4.13+dfsg1-1+deb12u1) ... Setting up login (1:4.16.0-2+really2.41-5) ... Installing new version of config file /etc/pam.d/login ... (Reading database ... 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(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 ... 16154 files and directories currently installed.) Preparing to unpack .../libblkid1_2.41-5_amd64.deb ... Unpacking libblkid1:amd64 (2.41-5) over (2.38.1-5+deb12u3) ... Setting up libblkid1:amd64 (2.41-5) ... (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 ... 16155 files and directories currently installed.) Preparing to unpack .../libsqlite3-0_3.46.1-7_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.46.1-7) over (3.40.1-2+deb12u2) ... Setting up libsqlite3-0:amd64 (3.46.1-7) ... Selecting previously unselected package liblastlog2-2: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 ... 16155 files and directories currently installed.) Preparing to unpack .../liblastlog2-2_2.41-5_amd64.deb ... Unpacking liblastlog2-2:amd64 (2.41-5) ... Setting up liblastlog2-2:amd64 (2.41-5) ... (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 ... 16162 files and directories currently installed.) Preparing to unpack .../libmount1_2.41-5_amd64.deb ... Unpacking libmount1:amd64 (2.41-5) over (2.38.1-5+deb12u3) ... Setting up libmount1:amd64 (2.41-5) ... (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 ... 16163 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.41-5_amd64.deb ... Unpacking libsmartcols1:amd64 (2.41-5) over (2.38.1-5+deb12u3) ... Setting up libsmartcols1:amd64 (2.41-5) ... (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 ... 16164 files and directories currently installed.) Preparing to unpack .../libuuid1_2.41-5_amd64.deb ... Unpacking libuuid1:amd64 (2.41-5) over (2.38.1-5+deb12u3) ... Setting up libuuid1:amd64 (2.41-5) ... (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 ... 16165 files and directories currently installed.) Preparing to unpack .../util-linux_2.41-5_amd64.deb ... Unpacking util-linux (2.41-5) over (2.38.1-5+deb12u3) ... Setting up util-linux (2.41-5) ... (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 ... 16130 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.41-5_amd64.deb ... Adding 'diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra' Unpacking util-linux-extra (2.41-5) over (2.38.1-5+deb12u3) ... dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/usr/lib/udev': Directory not empty dpkg: warning: unable to delete old directory '/etc/init.d': Directory not empty Setting up util-linux-extra (2.41-5) ... dpkg: libnettle8:amd64: dependency problems, but removing anyway as you requested: libhogweed6:amd64 depends on libnettle8. libgnutls30:amd64 depends on libnettle8 (>= 3.7~). (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 ... 16179 files and directories currently installed.) Removing libnettle8:amd64 (3.8.1-2) ... Selecting previously unselected package libnettle8t64: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 ... 16171 files and directories currently installed.) Preparing to unpack .../libnettle8t64_3.10.1-1_amd64.deb ... Unpacking libnettle8t64:amd64 (3.10.1-1) ... Setting up libnettle8t64:amd64 (3.10.1-1) ... dpkg: libhogweed6:amd64: dependency problems, but removing anyway as you requested: libgnutls30:amd64 depends on libhogweed6 (>= 3.6). (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 ... 16180 files and directories currently installed.) Removing libhogweed6:amd64 (3.8.1-2) ... Selecting previously unselected package libhogweed6t64: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 ... 16174 files and directories currently installed.) Preparing to unpack .../libhogweed6t64_3.10.1-1_amd64.deb ... Unpacking libhogweed6t64:amd64 (3.10.1-1) ... Setting up libhogweed6t64:amd64 (3.10.1-1) ... Selecting previously unselected package sqv. (Reading database ... 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(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 ... 16194 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.10.0-4_amd64.deb ... Unpacking liblz4-1:amd64 (1.10.0-4) over (1.9.4-1) ... Setting up liblz4-1:amd64 (1.10.0-4) ... (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 ... 16194 files and directories currently installed.) Preparing to unpack .../liblzma5_5.8.1-1_amd64.deb ... Unpacking liblzma5:amd64 (5.8.1-1) over (5.4.1-1) ... Setting up liblzma5:amd64 (5.8.1-1) ... (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 ... 16194 files and directories currently installed.) Preparing to unpack .../libudev1_257.9-1~deb13u1_amd64.deb ... Unpacking libudev1:amd64 (257.9-1~deb13u1) over (252.39-1~deb12u1) ... Setting up libudev1:amd64 (257.9-1~deb13u1) ... Selecting previously unselected package libapt-pkg7.0: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 ... 16194 files and directories currently installed.) Preparing to unpack .../libapt-pkg7.0_3.0.3_amd64.deb ... Unpacking libapt-pkg7.0:amd64 (3.0.3) ... Setting up libapt-pkg7.0:amd64 (3.0.3) ... (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 ... 16243 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.280_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.280) over (0.270) ... Setting up libdebconfclient0:amd64 (0.280) ... (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 ... 16243 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.7_amd64.deb ... Unpacking base-passwd (3.6.7) over (3.6.1) ... Setting up base-passwd (3.6.7) ... (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 ... 16244 files and directories currently installed.) Preparing to unpack .../libmd0_1.1.0-2+b1_amd64.deb ... Unpacking libmd0:amd64 (1.1.0-2+b1) over (1.0.4-2) ... Setting up libmd0:amd64 (1.1.0-2+b1) ... Selecting previously unselected package libbsd0: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 ... 16245 files and directories currently installed.) Preparing to unpack .../libbsd0_0.12.2-2_amd64.deb ... Unpacking libbsd0:amd64 (0.12.2-2) ... Setting up libbsd0:amd64 (0.12.2-2) ... (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 ... 16252 files and directories currently installed.) Preparing to unpack .../libacl1_2.3.2-2+b1_amd64.deb ... Unpacking libacl1:amd64 (2.3.2-2+b1) over (2.3.1-3) ... Setting up libacl1:amd64 (2.3.2-2+b1) ... (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 ... 16253 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.5.2-3_amd64.deb ... Unpacking libattr1:amd64 (1:2.5.2-3) over (1:2.5.1-4) ... Setting up libattr1:amd64 (1:2.5.2-3) ... (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 ... 16253 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.8.1-1_all.deb ... Unpacking libsemanage-common (3.8.1-1) over (3.4-1) ... Setting up libsemanage-common (3.8.1-1) ... (Reading database ... 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(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 ... 16289 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.5+20250216-2_all.deb ... Unpacking ncurses-base (6.5+20250216-2) over (6.4-4) ... Setting up ncurses-base (6.5+20250216-2) ... (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 ... 16287 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_3.14-4_amd64.deb ... Unpacking sysvinit-utils (3.14-4) over (3.06-4) ... dpkg: warning: unable to delete old directory '/lib/lsb/init-functions.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/lsb': Directory not empty dpkg: warning: unable to delete old directory '/lib/init': Directory not empty Setting up sysvinit-utils (3.14-4) ... (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 ... 16287 files and directories currently installed.) Preparing to unpack .../logsave_1.47.2-3+b3_amd64.deb ... Unpacking logsave (1.47.2-3+b3) over (1.47.0-2+b2) ... dpkg: libext2fs2:amd64: dependency problems, but removing anyway as you requested: e2fsprogs depends on libext2fs2 (= 1.47.0-2+b2). (Reading database ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' Adding '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' Adding 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' Adding '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' Unpacking libext2fs2t64:amd64 (1.47.2-3+b3) ... Setting up libcom-err2:amd64 (1.47.2-3+b3) ... Setting up libext2fs2t64:amd64 (1.47.2-3+b3) ... (Reading database ... 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Unpacking e2fsprogs (1.47.2-3+b3) over (1.47.0-2+b2) ... dpkg: warning: unable to delete old directory '/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/udev': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd': Directory not empty Preparing to unpack .../readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) over (8.2-1.3) ... dpkg: libreadline8:amd64: dependency problems, but removing anyway as you requested: libpython3.11-stdlib:amd64 depends on libreadline8 (>= 7.0~beta). (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 ... 16294 files and directories currently installed.) Removing libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libreadline8t64:amd64. (Reading database ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-6) ... Preparing to unpack .../libtirpc-common_1.3.6+ds-1_all.deb ... Unpacking libtirpc-common (1.3.6+ds-1) over (1.3.3+ds-1) ... Preparing to unpack .../libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) over (1.3.0-2) ... dpkg: libtirpc3:amd64: dependency problems, but removing anyway as you requested: libpython3.11-stdlib:amd64 depends on libtirpc3 (>= 1.0.2). (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 ... 16303 files and directories currently installed.) Removing libtirpc3:amd64 (1.3.3+ds-1) ... Selecting previously unselected package libtirpc3t64: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 ... 16296 files and directories currently installed.) Preparing to unpack .../0-libtirpc3t64_1.3.6+ds-1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.6+ds-1) ... Preparing to unpack .../1-mount_2.41-5_amd64.deb ... Unpacking mount (2.41-5) over (2.38.1-5+deb12u3) ... Preparing to unpack .../2-fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) over (2.0-2.1) ... Preparing to unpack .../3-libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) over (2.5.0-1+deb12u2) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../4-libpython3.13-minimal_3.13.5-2_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.5-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../5-python3.13-minimal_3.13.5-2_amd64.deb ... Unpacking python3.13-minimal (3.13.5-2) ... Preparing to unpack .../6-python3-yaml_6.0.2-1+b2_amd64.deb ... Unpacking python3-yaml (6.0.2-1+b2) over (6.0-3+b2) ... Preparing to unpack .../7-python3-pandas-lib_2.2.3+dfsg-9_amd64.deb ... Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-9) over (1.5.3+dfsg-2) ... Preparing to unpack .../8-python3-pandas_2.2.3+dfsg-9_all.deb ... Unpacking python3-pandas (2.2.3+dfsg-9) over (1.5.3+dfsg-2) ... Preparing to unpack .../9-python3-numpy_1%3a2.2.4+ds-1_amd64.deb ... Unpacking python3-numpy (1:2.2.4+ds-1) over (1:1.24.2-1+deb12u1) ... Setting up libpython3.13-minimal:amd64 (3.13.5-2) ... Setting up libexpat1:amd64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.5-2) ... (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 ... 16622 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.13.5-1_amd64.deb ... Unpacking python3-minimal (3.13.5-1) over (3.11.2-1+b1) ... Setting up python3-minimal (3.13.5-1) ... (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 ... 16621 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.5-1_amd64.deb ... Unpacking python3 (3.13.5-1) over (3.11.2-1+b1) ... Preparing to unpack .../01-libyaml-0-2_0.2.5-2_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.5-2) over (0.2.5-1) ... Selecting previously unselected package python3-numpy-dev:amd64. Preparing to unpack .../02-python3-numpy-dev_1%3a2.2.4+ds-1_amd64.deb ... Unpacking python3-numpy-dev:amd64 (1:2.2.4+ds-1) ... Preparing to unpack .../03-libblas3_3.12.1-6_amd64.deb ... Unpacking libblas3:amd64 (3.12.1-6) over (3.11.0-2) ... Preparing to unpack .../04-libgfortran5_14.2.0-19_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-19) over (12.2.0-14+deb12u1) ... Preparing to unpack .../05-liblapack3_3.12.1-6_amd64.deb ... Unpacking liblapack3:amd64 (3.12.1-6) over (3.11.0-2) ... Preparing to unpack .../06-tzdata_2025b-4+deb13u1_all.deb ... Unpacking tzdata (2025b-4+deb13u1) over (2025b-0+deb12u2) ... Preparing to unpack .../07-python3-dateutil_2.9.0-4_all.deb ... Unpacking python3-dateutil (2.9.0-4) over (2.8.2-2) ... Preparing to unpack .../08-python3-tz_2025.2-3_all.deb ... Unpacking python3-tz (2025.2-3) over (2022.7.1-4) ... Selecting previously unselected package python3-pytz. Preparing to unpack .../09-python3-pytz_2025.2-3_all.deb ... Unpacking python3-pytz (2025.2-3) ... Preparing to unpack .../10-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) over (10.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../11-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Preparing to unpack .../12-libffi8_3.4.8-2_amd64.deb ... Unpacking libffi8:amd64 (3.4.8-2) over (3.4.4-1) ... Setting up libffi8:amd64 (3.4.8-2) ... Selecting previously unselected package libpython3.13-stdlib: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 ... 16418 files and directories currently installed.) Preparing to unpack .../libpython3.13-stdlib_3.13.5-2_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.5-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../python3.13_3.13.5-2_amd64.deb ... Unpacking python3.13 (3.13.5-2) ... Preparing to unpack .../libpython3-stdlib_3.13.5-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.5-1) over (3.11.2-1+b1) ... Preparing to unpack .../libgpg-error0_1.51-4_amd64.deb ... Unpacking libgpg-error0:amd64 (1.51-4) over (1.46-1) ... Setting up libgpg-error0:amd64 (1.51-4) ... (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 ... 16836 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.11.0-7_amd64.deb ... Unpacking libgcrypt20:amd64 (1.11.0-7) over (1.10.1-3) ... Setting up libgcrypt20:amd64 (1.11.0-7) ... (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 ... 16836 files and directories currently installed.) Preparing to unpack .../gpgv_2.4.7-21+b3_amd64.deb ... Unpacking gpgv (2.4.7-21+b3) over (2.2.40-1.1+deb12u1) ... Setting up gpgv (2.4.7-21+b3) ... Selecting previously unselected package libunistring5: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 ... 16837 files and directories currently installed.) Preparing to unpack .../libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Preparing to unpack .../libidn2-0_2.3.8-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-2) over (2.3.3-1+b1) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up libidn2-0:amd64 (2.3.8-2) ... (Reading database ... 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Setting up ncbi-data (6.1.20170106+dfsg2-6) ... Setting up libkeyutils1:amd64 (1.6.3-6) ... Setting up fonts-lato (2.015-1) ... Setting up libgdbm6t64:amd64 (1.24-2) ... Setting up libgdbm-compat4t64:amd64 (1.24-2) ... Setting up libyaml-0-2:amd64 (0.2.5-2) ... Setting up libtirpc-common (1.3.6+ds-1) ... Setting up libuv1t64:amd64 (1.50.0-2) ... Setting up libnghttp2-14:amd64 (1.64.0-1.1) ... Setting up libgomp1:amd64 (14.2.0-19) ... Setting up libkrb5support0:amd64 (1.21.3-5) ... Setting up gcc-12-base:amd64 (12.4.0-5) ... Setting up tzdata (2025b-4+deb13u1) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Dec 1 11:06:12 UTC 2025. Universal Time is now: Mon Dec 1 11:06:12 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libblas3:amd64 (3.12.1-6) ... Setting up libquadmath0:amd64 (14.2.0-19) ... Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1) ... Setting up libss2:amd64 (1.47.2-3+b3) ... Setting up libncursesw6:amd64 (6.5+20250216-2) ... Setting up libk5crypto3:amd64 (1.21.3-5) ... Setting up libjs-sphinxdoc (8.1.3-5) ... Setting up logsave (1.47.2-3+b3) ... Setting up libgfortran5:amd64 (14.2.0-19) ... Setting up mount (2.41-5) ... Setting up perl-modules-5.40 (5.40.1-6) ... Setting up ncbi-vdb-data (3.2.1+dfsg-2) ... Setting up netbase (6.5) ... Setting up mawk (1.3.4.20250131-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up libmbedcrypto16:amd64 (3.6.4-2) ... Setting up libdivsufsort3:amd64 (2.0.1-6+b1) ... Setting up openssl (3.5.4-1~deb13u1) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up readline-common (8.2-6) ... Setting up sphinx-rtd-theme-common (3.0.2+dfsg-2) ... Setting up liblapack3:amd64 (3.12.1-6) ... Setting up e2fsprogs (1.47.2-3+b3) ... Installing new version of config file /etc/cron.d/e2scrub_all ... Installing new version of config file /etc/mke2fs.conf ... Setting up libperl5.40:amd64 (5.40.1-6) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt, it does not contain exactly one certificate or CRL 21 added, 13 removed; done. Setting up perl (5.40.1-6) ... Setting up libmbedx509-7:amd64 (3.6.4-2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libmbedtls21:amd64 (3.6.4-2) ... Setting up libreadline8t64:amd64 (8.2-6) ... Setting up hmmer (3.4+dfsg-2) ... Setting up libpython3.13-stdlib:amd64 (3.13.5-2) ... Setting up libpython3-stdlib:amd64 (3.13.5-1) ... Setting up libtirpc3t64:amd64 (1.3.6+ds-1) ... Setting up python3.13 (3.13.5-2) ... Setting up libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Setting up python3 (3.13.5-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up ncbi-blast+ (2.16.0+ds-7) ... Setting up python3-six (1.17.0-1) ... Setting up python3-packaging (25.0-1) ... Setting up python3-certifi (2025.1.31+ds-1) ... Setting up python3-typing-extensions (4.13.2-1) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up python3-dateutil (2.9.0-4) ... Setting up python3-more-itertools (10.7.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-colorama (0.4.6-4) ... Setting up python3-colorlog (6.9.0-1) ... Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-9) ... Setting up python3-typeguard (4.4.2-1) ... Setting up python3-yaml (6.0.2-1+b2) ... Setting up python3-pytz (2025.2-3) ... Setting up python3-tz (2025.2-3) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-pandas (2.2.3+dfsg-9) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-networkx (3.2.1-5) ... Setting up macsyfinder (2.1.4-1+b2) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for debianutils (5.23.2) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 1m17.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 1m17.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m18.2s DUMP: 58256853ebd2bd549527b330c2592235 - 1m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 1m18.5s DUMP: Package: macsyfinder Source: macsyfinder (2.1.4-1) Version: 2.1.4-1+b2 Installed-Size: 37591 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-jquery (>= 3.6.0), libjs-sphinxdoc (>= 8.1), sphinx-rtd-theme-common (>= 3.0.2+dfsg), hmmer, ncbi-blast+, libjs-underscore Description-en: detection of macromolecular systems in protein datasets MacSyFinder is a program to model and detect macromolecular systems, genetic pathways... in protein datasets. In prokaryotes, these systems have often evolutionarily conserved properties: they are made of conserved components, and are encoded in compact loci (conserved genetic architecture). The user models these systems with MacSyFinder to reflect these conserved features, and to allow their efficient detection . This package presents the Open Source Java API to biological databases and a series of mostly sequence-based algorithms. Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 8.1.3-5) Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.1.4-1+b2_amd64.deb Size: 14537468 MD5sum: bae9b6f7a0b6098a47d01d491740a84b SHA256: c908281d201e271802f78742a02815a7e54fb39b775f947633235cc461a58609 1m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 1m18.5s INFO: apt-cache knows about the following packages: macsyfinder 1m18.5s INFO: Running scripts pre_install 1m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 1m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 1m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 1m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 1m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 1m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 1m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 1m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 1m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 1m18.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release v=13.2,o=Debian,a=stable,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 1m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 1m18.6s DUMP: macsyfinder: Installed: 2.1.4-1+b2 Candidate: 2.1.4-1+b2 Version table: *** 2.1.4-1+b2 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 100 /var/lib/dpkg/status 1m18.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 1m18.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 1m19.0s DUMP: Reading package lists... Building dependency tree... Reading state information... macsyfinder is already the newest version (2.1.4-1+b2). The following packages were automatically installed and are no longer required: libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libnsl2 libpcre3 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3-six python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 1m19.0s INFO: Running scripts post_install 1m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 1m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 1m19.0s INFO: Running scripts post_distupgrade 1m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_exceptions'] 1m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_exceptions'] 1m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_zz_backports'] 1m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_zz_backports'] 1m19.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 1m20.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 1m20.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpvm0xqior to testing 1m20.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ forky main 1m20.6s INFO: Running scripts pre_distupgrade 1m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_exceptions'] 1m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_exceptions'] 1m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 1m23.7s DUMP: Get:1 http://deb.debian.org/debian forky InRelease [148 kB] Get:2 http://deb.debian.org/debian forky/main amd64 Packages [9692 kB] Get:3 http://deb.debian.org/debian forky/main Translation-en [6455 kB] Fetched 16.3 MB in 2s (7260 kB/s) Reading package lists... 1m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 1m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 1m51.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: gcc-14-base libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libnsl2 libpcre3 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3-six python3-tz python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: gcc-15-base isa-support sse4.2-support The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils diffutils e2fsprogs gcc-12-base gcc-14-base gpgv grep hmmer init-system-helpers libapt-pkg7.0 libaudit-common libaudit1 libblas3 libblkid1 libcom-err2 libcrypt1 libdb5.3t64 libdebconfclient0 libdivsufsort3 libexpat1 libext2fs2t64 libffi8 libgcc-s1 libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libgmp10 libgomp1 libgpg-error0 libgssapi-krb5-2 libhogweed6t64 libidn2-0 libjs-jquery libjs-sphinxdoc libk5crypto3 libkrb5-3 libkrb5support0 liblapack3 liblastlog2-2 liblz4-1 liblzma5 libmbedcrypto16 libmbedtls21 libmbedx509-7 libmount1 libnettle8t64 libnghttp2-14 libp11-kit0 libpcre2-8-0 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libquadmath0 libreadline8t64 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libssl3t64 libstdc++6 libsystemd0 libudev1 libuuid1 libuv1t64 libzstd1 login login.defs logsave media-types mount ncbi-blast+ openssl openssl-provider-legacy passwd python3 python3-certifi python3-colorlog python3-inflect python3-minimal python3-more-itertools python3-networkx python3-numpy python3-numpy-dev python3-pandas python3-pandas-lib python3-pytz python3-six python3-typeguard python3-typing-extensions python3-tz python3-yaml python3.13 python3.13-minimal readline-common sphinx-rtd-theme-common sysvinit-utils tzdata util-linux util-linux-extra 108 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 91.7 MB of archives. After this operation, 31.0 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian forky/main amd64 base-files amd64 14 [72.9 kB] Get:2 http://deb.debian.org/debian forky/main amd64 bash amd64 5.3-1 [1556 kB] Get:3 http://deb.debian.org/debian forky/main amd64 diffutils amd64 1:3.12-1 [405 kB] Get:4 http://deb.debian.org/debian forky/main amd64 grep amd64 3.12-1 [443 kB] Get:5 http://deb.debian.org/debian forky/main amd64 libsqlite3-0 amd64 3.46.1-8 [968 kB] Get:6 http://deb.debian.org/debian forky/main amd64 login amd64 1:4.16.0-2+really2.41.2-4 [105 kB] Get:7 http://deb.debian.org/debian forky/main amd64 libblkid1 amd64 2.41.2-4 [174 kB] Get:8 http://deb.debian.org/debian forky/main amd64 libmount1 amd64 2.41.2-4 [211 kB] Get:9 http://deb.debian.org/debian forky/main amd64 libsmartcols1 amd64 2.41.2-4 [145 kB] Get:10 http://deb.debian.org/debian forky/main amd64 libuuid1 amd64 2.41.2-4 [38.7 kB] Get:11 http://deb.debian.org/debian forky/main amd64 bsdutils amd64 1:2.41.2-4 [93.5 kB] Get:12 http://deb.debian.org/debian forky/main amd64 util-linux amd64 2.41.2-4 [1163 kB] Get:13 http://deb.debian.org/debian forky/main amd64 util-linux-extra amd64 2.41.2-4 [417 kB] Get:14 http://deb.debian.org/debian forky/main amd64 mount amd64 2.41.2-4 [163 kB] Get:15 http://deb.debian.org/debian forky/main amd64 liblastlog2-2 amd64 2.41.2-4 [29.5 kB] Get:16 http://deb.debian.org/debian forky/main amd64 libaudit-common all 1:4.1.2-1 [14.3 kB] Get:17 http://deb.debian.org/debian forky/main amd64 libaudit1 amd64 1:4.1.2-1 [60.4 kB] Get:18 http://deb.debian.org/debian forky/main amd64 libcrypt1 amd64 1:4.5.1-1 [98.0 kB] Get:19 http://deb.debian.org/debian forky/main amd64 libpcre2-8-0 amd64 10.46-1 [298 kB] Get:20 http://deb.debian.org/debian forky/main amd64 libselinux1 amd64 3.9-4 [85.8 kB] Get:21 http://deb.debian.org/debian forky/main amd64 libsystemd0 amd64 259~rc1-1 [469 kB] Get:22 http://deb.debian.org/debian forky/main amd64 gcc-15-base amd64 15.2.0-9 [53.7 kB] Get:23 http://deb.debian.org/debian forky/main amd64 libgcc-s1 amd64 15.2.0-9 [71.5 kB] Get:24 http://deb.debian.org/debian forky/main amd64 liblz4-1 amd64 1.10.0-6 [70.5 kB] Get:25 http://deb.debian.org/debian forky/main amd64 liblzma5 amd64 5.8.1-2 [310 kB] Get:26 http://deb.debian.org/debian forky/main amd64 openssl-provider-legacy amd64 3.5.4-1 [308 kB] Get:27 http://deb.debian.org/debian forky/main amd64 libzstd1 amd64 1.5.7+dfsg-2 [308 kB] Get:28 http://deb.debian.org/debian forky/main amd64 libssl3t64 amd64 3.5.4-1 [2446 kB] Get:29 http://deb.debian.org/debian forky/main amd64 libstdc++6 amd64 15.2.0-9 [736 kB] Get:30 http://deb.debian.org/debian forky/main amd64 libudev1 amd64 259~rc1-1 [157 kB] Get:31 http://deb.debian.org/debian forky/main amd64 libapt-pkg7.0 amd64 3.1.12 [1229 kB] Get:32 http://deb.debian.org/debian forky/main amd64 libdebconfclient0 amd64 0.282 [10.9 kB] Get:33 http://deb.debian.org/debian forky/main amd64 base-passwd amd64 3.6.8 [54.6 kB] Get:34 http://deb.debian.org/debian forky/main amd64 login.defs all 1:4.18.0-2 [211 kB] Get:35 http://deb.debian.org/debian forky/main amd64 libsemanage-common all 3.9-1 [7888 B] Get:36 http://deb.debian.org/debian forky/main amd64 libsepol2 amd64 3.9-2 [300 kB] Get:37 http://deb.debian.org/debian forky/main amd64 libsemanage2 amd64 3.9-1 [96.8 kB] Get:38 http://deb.debian.org/debian forky/main amd64 passwd amd64 1:4.18.0-2 [1286 kB] Get:39 http://deb.debian.org/debian forky/main amd64 adduser all 3.153 [191 kB] Get:40 http://deb.debian.org/debian forky/main amd64 apt amd64 3.1.12 [1520 kB] Get:41 http://deb.debian.org/debian forky/main amd64 init-system-helpers all 1.69 [39.3 kB] Get:42 http://deb.debian.org/debian forky/main amd64 sysvinit-utils amd64 3.15-6 [35.0 kB] Get:43 http://deb.debian.org/debian forky/main amd64 logsave amd64 1.47.2-3+b4 [24.9 kB] Get:44 http://deb.debian.org/debian forky/main amd64 libext2fs2t64 amd64 1.47.2-3+b4 [215 kB] Get:45 http://deb.debian.org/debian forky/main amd64 e2fsprogs amd64 1.47.2-3+b4 [593 kB] Get:46 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.3-1 [112 kB] Get:47 http://deb.debian.org/debian forky/main amd64 media-types all 14.0.0 [30.8 kB] Get:48 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get:49 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.9-1 [764 kB] Get:50 http://deb.debian.org/debian forky/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-10 [709 kB] Get:51 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get:52 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get:53 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get:54 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.9-1 [2257 kB] Get:55 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.9-1 [865 kB] Get:56 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.9-1 [1965 kB] Get:57 http://deb.debian.org/debian forky/main amd64 python3-pandas all 2.3.3+dfsg-2 [2935 kB] Get:58 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB] Get:59 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.7-1 [28.3 kB] Get:60 http://deb.debian.org/debian forky/main amd64 python3-numpy amd64 1:2.3.5+ds-2 [5096 kB] Get:61 http://deb.debian.org/debian forky/main amd64 python3-numpy-dev amd64 1:2.3.5+ds-2 [139 kB] Get:62 http://deb.debian.org/debian forky/main amd64 libblas3 amd64 3.12.1-7 [215 kB] Get:63 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-9 [862 kB] Get:64 http://deb.debian.org/debian forky/main amd64 liblapack3 amd64 3.12.1-7 [2785 kB] Get:65 http://deb.debian.org/debian forky/main amd64 python3-pytz all 2025.2-4 [31.8 kB] Get:66 http://deb.debian.org/debian forky/main amd64 python3-pandas-lib amd64 2.3.3+dfsg-2 [4362 kB] Get:67 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB] Get:68 http://deb.debian.org/debian forky/main amd64 isa-support amd64 27 [14.9 kB] Get:69 http://deb.debian.org/debian forky/main amd64 sse4.2-support amd64 27 [3692 B] Get:70 http://deb.debian.org/debian forky/main amd64 libgmp10 amd64 2:6.3.0+dfsg-5 [574 kB] Get:71 http://deb.debian.org/debian forky/main amd64 libnettle8t64 amd64 3.10.2-1 [307 kB] Get:72 http://deb.debian.org/debian forky/main amd64 libhogweed6t64 amd64 3.10.2-1 [336 kB] Get:73 http://deb.debian.org/debian forky/main amd64 gcc-12-base amd64 12.5.0-6 [45.1 kB] Get:74 http://deb.debian.org/debian forky/main amd64 libquadmath0 amd64 15.2.0-9 [145 kB] Get:75 http://deb.debian.org/debian forky/main amd64 libgomp1 amd64 15.2.0-9 [140 kB] Get:76 http://deb.debian.org/debian forky/main amd64 gcc-14-base amd64 14.3.0-10 [52.4 kB] Get:77 http://deb.debian.org/debian forky/main amd64 libgpg-error0 amd64 1.56-2 [89.1 kB] Get:78 http://deb.debian.org/debian forky/main amd64 libgcrypt20 amd64 1.11.2-3 [871 kB] Get:79 http://deb.debian.org/debian forky/main amd64 gpgv amd64 2.4.8-4 [243 kB] Get:80 http://deb.debian.org/debian forky/main amd64 libdivsufsort3 amd64 2.0.1-7 [45.8 kB] Get:81 http://deb.debian.org/debian forky/main amd64 hmmer amd64 3.4+dfsg-3 [1079 kB] Get:82 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b4 [25.1 kB] Get:83 http://deb.debian.org/debian forky/main amd64 libgdbm6t64 amd64 1.26-1 [78.5 kB] Get:84 http://deb.debian.org/debian forky/main amd64 libgdbm-compat4t64 amd64 1.26-1 [52.8 kB] Get:85 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.22.1-2 [139 kB] Get:86 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.22.1-2 [337 kB] Get:87 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.22.1-2 [33.1 kB] Get:88 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.22.1-2 [81.1 kB] Get:89 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get:90 http://deb.debian.org/debian forky/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1 [319 kB] Get:91 http://deb.debian.org/debian forky/main amd64 libjs-sphinxdoc all 8.2.3-9 [27.7 kB] Get:92 http://deb.debian.org/debian forky/main amd64 libmbedcrypto16 amd64 3.6.5-0.1 [363 kB] Get:93 http://deb.debian.org/debian forky/main amd64 libmbedx509-7 amd64 3.6.5-0.1 [152 kB] Get:94 http://deb.debian.org/debian forky/main amd64 libmbedtls21 amd64 3.6.5-0.1 [246 kB] Get:95 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get:96 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.10-1 [444 kB] Get:97 http://deb.debian.org/debian forky/main amd64 libss2 amd64 1.47.2-3+b4 [29.8 kB] Get:98 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get:99 http://deb.debian.org/debian forky/main amd64 ncbi-blast+ amd64 2.17.0+ds-6 [17.0 MB] Get:100 http://deb.debian.org/debian forky/main amd64 openssl amd64 3.5.4-1 [1496 kB] Get:101 http://deb.debian.org/debian forky/main amd64 python3-certifi all 2025.11.12+ds-1 [10.0 kB] Get:102 http://deb.debian.org/debian forky/main amd64 python3-colorlog all 6.10.1-1 [27.9 kB] Get:103 http://deb.debian.org/debian forky/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get:104 http://deb.debian.org/debian forky/main amd64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get:105 http://deb.debian.org/debian forky/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get:106 http://deb.debian.org/debian forky/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get:107 http://deb.debian.org/debian forky/main amd64 python3-networkx all 3.4.2-2 [24.2 MB] Get:108 http://deb.debian.org/debian forky/main amd64 python3-six all 1.17.0-2 [16.6 kB] Get:109 http://deb.debian.org/debian forky/main amd64 python3-tz all 2025.2-4 [4272 B] Get:110 http://deb.debian.org/debian forky/main amd64 python3-yaml amd64 6.0.2-2 [137 kB] Get:111 http://deb.debian.org/debian forky/main amd64 sphinx-rtd-theme-common all 3.0.2+dfsg-3 [1023 kB] Preconfiguring packages ... 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Removing 'diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra' Removing 'diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra' Removing 'diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra' Removing 'diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra' Removing 'diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra' Removing 'diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra' Unpacking util-linux-extra (2.41.2-4) over (2.41-5) ... Preparing to unpack .../mount_2.41.2-4_amd64.deb ... Unpacking mount (2.41.2-4) over (2.41-5) ... Preparing to unpack .../liblastlog2-2_2.41.2-4_amd64.deb ... Unpacking liblastlog2-2:amd64 (2.41.2-4) over (2.41-5) ... Setting up liblastlog2-2:amd64 (2.41.2-4) ... (Reading database ... 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Setting up libgcrypt20:amd64 (1.11.2-3) ... Setting up libidn2-0:amd64 (2.3.8-4) ... Setting up libcom-err2:amd64 (1.47.2-3+b4) ... Setting up libgomp1:amd64 (15.2.0-9) ... Setting up libkrb5support0:amd64 (1.22.1-2) ... Setting up gcc-12-base:amd64 (12.5.0-6) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Dec 1 11:06:54 UTC 2025. Universal Time is now: Mon Dec 1 11:06:54 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libblas3:amd64 (3.12.1-7) ... Setting up libquadmath0:amd64 (15.2.0-9) ... Setting up python3-numpy-dev:amd64 (1:2.3.5+ds-2) ... Setting up libss2:amd64 (1.47.2-3+b4) ... Setting up libk5crypto3:amd64 (1.22.1-2) ... Setting up libjs-sphinxdoc (8.2.3-9) ... Setting up logsave (1.47.2-3+b4) ... Setting up libgfortran5:amd64 (15.2.0-9) ... Setting up libffi8:amd64 (3.5.2-2) ... Setting up mount (2.41.2-4) ... Setting up gpgv (2.4.8-4) ... Setting up sse4.2-support (27) ... Setting up libkrb5-3:amd64 (1.22.1-2) ... Setting up libmbedcrypto16:amd64 (3.6.5-0.1) ... Setting up libjs-jquery (3.7.1+dfsg+~3.5.33-1) ... Setting up libdivsufsort3:amd64 (2.0.1-7) ... Setting up openssl (3.5.4-1) ... Setting up readline-common (8.3-3) ... Setting up sphinx-rtd-theme-common (3.0.2+dfsg-3) ... Setting up util-linux-extra (2.41.2-4) ... Setting up login (1:4.16.0-2+really2.41.2-4) ... Setting up liblapack3:amd64 (3.12.1-7) ... Setting up e2fsprogs (1.47.2-3+b4) ... Setting up libmbedx509-7:amd64 (3.6.5-0.1) ... Setting up libp11-kit0:amd64 (0.25.10-1) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-2) ... Setting up libmbedtls21:amd64 (3.6.5-0.1) ... Setting up libreadline8t64:amd64 (8.3-3) ... Setting up hmmer (3.4+dfsg-3) ... Setting up libpython3.13-stdlib:amd64 (3.13.9-1) ... Setting up libpython3-stdlib:amd64 (3.13.7-1) ... Setting up python3.13 (3.13.9-1) ... Setting up python3 (3.13.7-1) ... Setting up python3-networkx (3.4.2-2) ... Setting up ncbi-blast+ (2.17.0+ds-6) ... Setting up python3-six (1.17.0-2) ... Setting up python3-certifi (2025.11.12+ds-1) ... Setting up python3-typing-extensions (4.15.0-1) ... Setting up python3-numpy (1:2.3.5+ds-2) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-colorlog (6.10.1-1) ... Setting up python3-pandas-lib:amd64 (2.3.3+dfsg-2) ... Setting up python3-typeguard (4.4.4-1) ... Setting up python3-yaml (6.0.2-2) ... Setting up python3-pytz (2025.2-4) ... Setting up python3-tz (2025.2-4) ... Setting up python3-inflect (7.5.0-1) ... Setting up python3-pandas (2.3.3+dfsg-2) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for debianutils (5.23.2) ... 1m51.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 1m51.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m53.0s DUMP: 4a8d07ee4aa39eabe04e574e55725bf4 - 1m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 1m53.2s DUMP: Package: macsyfinder Source: macsyfinder (2.1.4-1) Version: 2.1.4-1+b2 Installed-Size: 37591 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-jquery (>= 3.6.0), libjs-sphinxdoc (>= 8.1), sphinx-rtd-theme-common (>= 3.0.2+dfsg), hmmer, ncbi-blast+, libjs-underscore Description-en: detection of macromolecular systems in protein datasets MacSyFinder is a program to model and detect macromolecular systems, genetic pathways... in protein datasets. In prokaryotes, these systems have often evolutionarily conserved properties: they are made of conserved components, and are encoded in compact loci (conserved genetic architecture). The user models these systems with MacSyFinder to reflect these conserved features, and to allow their efficient detection . This package presents the Open Source Java API to biological databases and a series of mostly sequence-based algorithms. Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 8.1.3-5) Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.1.4-1+b2_amd64.deb Size: 14537468 MD5sum: bae9b6f7a0b6098a47d01d491740a84b SHA256: c908281d201e271802f78742a02815a7e54fb39b775f947633235cc461a58609 1m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 1m53.2s INFO: apt-cache knows about the following packages: macsyfinder 1m53.2s INFO: Running scripts pre_install 1m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 1m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 1m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 1m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 1m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 1m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 1m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 1m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 1m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m53.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 1m53.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian forky/main amd64 Packages release o=Debian,a=testing,n=forky,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m53.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 1m53.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 1m53.3s DUMP: macsyfinder: Installed: 2.1.4-1+b2 Candidate: 2.1.4-1+b2 Version table: *** 2.1.4-1+b2 500 500 http://deb.debian.org/debian forky/main amd64 Packages 100 /var/lib/dpkg/status 1m53.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 1m53.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 1m53.7s DUMP: Reading package lists... Building dependency tree... Reading state information... macsyfinder is already the newest version (2.1.4-1+b2). Solving dependencies... The following packages were automatically installed and are no longer required: gcc-14-base libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libnsl2 libpcre3 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3-six python3-tz python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 1m53.7s INFO: Running scripts post_install 1m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 1m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 1m53.7s INFO: Running scripts post_distupgrade 1m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_exceptions'] 1m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_exceptions'] 1m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_zz_backports'] 1m53.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_zz_backports'] 1m53.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 1m55.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 1m55.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpvm0xqior to sid 1m55.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 1m55.2s INFO: Running scripts pre_distupgrade 1m55.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m55.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m55.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_exceptions'] 1m55.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_exceptions'] 1m55.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m55.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m55.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m55.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m55.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m55.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m55.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 1m59.4s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [176 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.2 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7454 kB] Fetched 17.9 MB in 3s (5456 kB/s) Reading package lists... 1m59.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'update'] 1m59.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 2m6.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: gcc-14-base libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libnsl2 libpcre3 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-more-itertools python3-pkg-resources python3-six python3-typeguard python3-typing-extensions python3-tz python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. The following packages will be upgraded: gpgv libcap2 libjs-sphinxdoc libncursesw6 libperl5.40 libsystemd0 libtinfo6 libudev1 macsyfinder ncurses-base ncurses-bin perl perl-base perl-modules-5.40 python3-networkx sqv 16 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 50.8 MB of archives. After this operation, 12.3 kB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.5+20251123-1 [445 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libperl5.40 amd64 5.40.1-7 [4317 kB] Get:3 http://deb.debian.org/debian sid/main amd64 perl amd64 5.40.1-7 [267 kB] Get:4 http://deb.debian.org/debian sid/main amd64 perl-base amd64 5.40.1-7 [1679 kB] Get:5 http://deb.debian.org/debian sid/main amd64 perl-modules-5.40 all 5.40.1-7 [3012 kB] Get:6 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.5+20251123-1 [277 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libcap2 amd64 1:2.75-10+b2 [28.7 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 259~rc2-1 [470 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.5+20251123-1 [136 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.5+20251123-1 [353 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 259~rc2-1 [157 kB] Get:12 http://deb.debian.org/debian sid/main amd64 sqv amd64 1.3.0-3+b1 [650 kB] Get:13 http://deb.debian.org/debian sid/main amd64 gpgv amd64 2.4.8-4+b1 [243 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libjs-sphinxdoc all 8.2.3-10 [27.7 kB] Get:15 http://deb.debian.org/debian sid/main amd64 python3-networkx all 3.4.2-3 [24.2 MB] Get:16 http://deb.debian.org/debian sid/main amd64 macsyfinder amd64 2.1.4-1+b3 [14.5 MB] Fetched 50.8 MB in 1s (34.1 MB/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 ... 19133 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.5+20251123-1_amd64.deb ... Unpacking ncurses-bin (6.5+20251123-1) over (6.5+20250216-2) ... Setting up ncurses-bin (6.5+20251123-1) ... (Reading database ... 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(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 ... 19133 files and directories currently installed.) Preparing to unpack .../libudev1_259~rc2-1_amd64.deb ... Unpacking libudev1:amd64 (259~rc2-1) over (259~rc1-1) ... Setting up libudev1:amd64 (259~rc2-1) ... (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 ... 19133 files and directories currently installed.) Preparing to unpack .../sqv_1.3.0-3+b1_amd64.deb ... Unpacking sqv (1.3.0-3+b1) over (1.3.0-3) ... Setting up sqv (1.3.0-3+b1) ... (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 ... 19134 files and directories currently installed.) Preparing to unpack .../gpgv_2.4.8-4+b1_amd64.deb ... Unpacking gpgv (2.4.8-4+b1) over (2.4.8-4) ... Preparing to unpack .../libjs-sphinxdoc_8.2.3-10_all.deb ... Unpacking libjs-sphinxdoc (8.2.3-10) over (8.2.3-9) ... Preparing to unpack .../python3-networkx_3.4.2-3_all.deb ... Unpacking python3-networkx (3.4.2-3) over (3.4.2-2) ... Preparing to unpack .../macsyfinder_2.1.4-1+b3_amd64.deb ... Unpacking macsyfinder (2.1.4-1+b3) over (2.1.4-1+b2) ... Setting up python3-networkx (3.4.2-3) ... Setting up libncursesw6:amd64 (6.5+20251123-1) ... Setting up libjs-sphinxdoc (8.2.3-10) ... Setting up perl-modules-5.40 (5.40.1-7) ... Setting up macsyfinder (2.1.4-1+b3) ... Setting up gpgv (2.4.8-4+b1) ... Setting up libperl5.40:amd64 (5.40.1-7) ... Setting up perl (5.40.1-7) ... Processing triggers for libc-bin (2.41-12) ... 2m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-yf', 'dist-upgrade'] 2m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m7.3s DUMP: 74b51794d1aea675d281e6377fa4b2f2 - 2m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 2m7.5s DUMP: Package: macsyfinder Source: macsyfinder (2.1.4-1) Version: 2.1.4-1+b3 Installed-Size: 37541 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-jquery (>= 3.6.0), libjs-sphinxdoc (>= 8.2), sphinx-rtd-theme-common (>= 3.0.2+dfsg), hmmer, ncbi-blast+, libjs-underscore Description-en: detection of macromolecular systems in protein datasets MacSyFinder is a program to model and detect macromolecular systems, genetic pathways... in protein datasets. In prokaryotes, these systems have often evolutionarily conserved properties: they are made of conserved components, and are encoded in compact loci (conserved genetic architecture). The user models these systems with MacSyFinder to reflect these conserved features, and to allow their efficient detection . This package presents the Open Source Java API to biological databases and a series of mostly sequence-based algorithms. Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 8.2.3-10) Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.1.4-1+b3_amd64.deb Size: 14490328 MD5sum: 7f8ad8fdb7a99806dd3ddf3c18ce1c12 SHA256: 1eda3ad64775b04667c7691b1d9dca57660b2b9ff4f30e61e32e57f57a0eee1f 2m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'show', '--no-all-versions', 'macsyfinder'] 2m7.5s INFO: apt-cache knows about the following packages: macsyfinder 2m7.5s INFO: Running scripts pre_install 2m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 2m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 2m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 2m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 2m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 2m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 2m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 2m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 2m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 2m7.6s 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: 2m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 2m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 2m7.6s DUMP: macsyfinder: Installed: 2.1.4-1+b3 Candidate: 2.1.4-1+b3 Version table: *** 2.1.4-1+b3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 2m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 2m8.1s DUMP: Reading package lists... Building dependency tree... Reading state information... macsyfinder is already the newest version (2.1.4-1+b3). Solving dependencies... The following packages were automatically installed and are no longer required: gcc-14-base libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libnsl2 libpcre3 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-more-itertools python3-pkg-resources python3-six python3-typeguard python3-typing-extensions python3-tz python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder'] 2m8.1s INFO: Running scripts post_install 2m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 2m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 2m8.1s INFO: Running scripts post_distupgrade 2m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_exceptions'] 2m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_exceptions'] 2m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_zz_backports'] 2m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_distupgrade_zz_backports'] 2m8.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m9.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m9.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m11.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m11.1s INFO: Running scripts pre_install 2m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 2m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_database-server'] 2m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 2m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_exceptions'] 2m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 2m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_extras'] 2m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 2m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture'] 2m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 2m11.1s 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: 2m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy'] 2m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 2m11.2s DUMP: macsyfinder: Installed: 2.1.4-1+b3 Candidate: 2.1.4-1+b3 Version table: *** 2.1.4-1+b3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-cache', 'policy', 'macsyfinder'] 2m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder=2.1.4-1+b3'] 2m11.6s DUMP: Reading package lists... Building dependency tree... Reading state information... macsyfinder is already the newest version (2.1.4-1+b3). Solving dependencies... The following packages were automatically installed and are no longer required: gcc-14-base libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libnsl2 libpcre3 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-more-itertools python3-pkg-resources python3-six python3-typeguard python3-typing-extensions python3-tz python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', '-y', 'install', 'macsyfinder=2.1.4-1+b3'] 2m11.6s INFO: Running scripts post_install 2m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 2m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_install_exceptions'] 2m11.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m13.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m13.2s INFO: /lib converted to /usr/lib by /usr merge 2m13.2s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 2m14.1s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', '-ac', '--ignore-obsolete'] 2m17.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', '-ac', '--ignore-obsolete'] 2m17.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m17.1s DUMP: 0.15.9~deb12u1 2m17.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m17.1s INFO: Running adequate version 0.15.9~deb12u1 now. 2m17.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'macsyfinder'] 2m17.3s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'macsyfinder'] 2m17.3s INFO: Running scripts pre_remove 2m17.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m17.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m17.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m17.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m17.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m19.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m19.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_exceptions'] 2m19.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/pre_remove_exceptions'] 2m19.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m19.7s DUMP: install ok installed adduser adduser 3.153 install ok installed apt apt 3.1.12 install ok installed base-files base-files 14 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-1 install ok installed bsdutils bsdutils 1:2.41.2-4 install ok installed ca-certificates ca-certificates 20250419 install ok installed coreutils coreutils 9.7-3 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.91 install ok installed debian-archive-keyring debian-archive-keyring 2025.1 install ok installed debianutils debianutils 5.23.2 install ok installed diffutils diffutils 1:3.12-1 install ok installed dpkg dpkg 1.22.21 install ok installed e2fsprogs e2fsprogs 1.47.2-3+b4 install ok installed findutils findutils 4.10.0-3 install ok installed fonts-font-awesome fonts-font-awesome 5.0.10+really4.7.0~dfsg-4.1 install ok installed fonts-lato fonts-lato 2.015-1 install ok installed gcc-12-base:amd64 gcc-12-base 12.5.0-6 install ok installed gcc-14-base:amd64 gcc-14-base 14.3.0-10 install ok installed gcc-15-base:amd64 gcc-15-base 15.2.0-9 install ok installed gpgv gpgv 2.4.8-4+b1 install ok installed grep grep 3.12-1 install ok installed gzip gzip 1.13-1 install ok installed hmmer hmmer 3.4+dfsg-3 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.69 install ok installed isa-support:amd64 isa-support 27 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.1.12 install ok installed libattr1:amd64 libattr1 1:2.5.2-3 install ok installed libaudit-common libaudit-common 1:4.1.2-1 install ok installed libaudit1:amd64 libaudit1 1:4.1.2-1 install ok installed libblas3:amd64 libblas3 3.12.1-7 install ok installed libblkid1:amd64 libblkid1 2.41.2-4 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.41-12 install ok installed libc6:amd64 libc6 2.41-12 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b1 install ok installed libcap2:amd64 libcap2 1:2.75-10+b2 install ok installed libcom-err2:amd64 libcom-err2 1.47.2-3+b4 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.1-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-10 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.282 install ok installed libdivsufsort3:amd64 libdivsufsort3 2.0.1-7 install ok installed libexpat1:amd64 libexpat1 2.7.3-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2-3+b4 install ok installed libffi8:amd64 libffi8 3.5.2-2 install ok installed libgcc-s1:amd64 libgcc-s1 15.2.0-9 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.2-3 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.26-1 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.26-1 install ok installed libgfortran5:amd64 libgfortran5 15.2.0-9 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u5 install ok installed libgomp1:amd64 libgomp1 15.2.0-9 install ok installed libgpg-error0:amd64 libgpg-error0 1.56-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.22.1-2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.8-4 install ok installed libjs-jquery libjs-jquery 3.7.1+dfsg+~3.5.33-1 install ok installed libjs-sphinxdoc libjs-sphinxdoc 8.2.3-10 install ok installed libjs-underscore libjs-underscore 1.13.4~dfsg+~1.11.4-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.22.1-2 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-6 install ok installed libkrb5-3:amd64 libkrb5-3 1.22.1-2 install ok installed libkrb5support0:amd64 libkrb5support0 1.22.1-2 install ok installed liblapack3:amd64 liblapack3 3.12.1-7 install ok installed liblastlog2-2:amd64 liblastlog2-2 2.41.2-4 install ok installed liblmdb0:amd64 liblmdb0 0.9.31-1+b2 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-6 install ok installed liblzma5:amd64 liblzma5 5.8.1-2 install ok installed libmbedcrypto16:amd64 libmbedcrypto16 3.6.5-0.1 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.3-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.3-1 install ok installed libmbedtls21:amd64 libmbedtls21 3.6.5-0.1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.3-1 install ok installed libmbedx509-7:amd64 libmbedx509-7 3.6.5-0.1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.41.2-4 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.2.1+dfsg-2 install ok installed libncursesw6:amd64 libncursesw6 6.5+20251123-1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.64.0-1.1+b1 install ok installed libnsl2:amd64 libnsl2 1.3.0-3+b3 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.10-1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-5 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-5 install ok installed libpam-runtime libpam-runtime 1.7.0-5 install ok installed libpam0g:amd64 libpam0g 1.7.0-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.46-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-15 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u3 install ok installed libperl5.40:amd64 libperl5.40 5.40.1-7 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.13.7-1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.2-6+deb12u6 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.2-6+deb12u6 install ok installed libpython3.13-minimal:amd64 libpython3.13-minimal 3.13.9-1 install ok installed libpython3.13-stdlib:amd64 libpython3.13-stdlib 3.13.9-1 install ok installed libquadmath0:amd64 libquadmath0 15.2.0-9 install ok installed libreadline8t64:amd64 libreadline8t64 8.3-3 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2 install ok installed libselinux1:amd64 libselinux1 3.9-4 install ok installed libsemanage-common libsemanage-common 3.9-1 install ok installed libsemanage2:amd64 libsemanage2 3.9-1 install ok installed libsepol2:amd64 libsepol2 3.9-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.41.2-4 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-8 install ok installed libss2:amd64 libss2 1.47.2-3+b4 install ok installed libssl3t64:amd64 libssl3t64 3.5.4-1 install ok installed libstdc++6:amd64 libstdc++6 15.2.0-9 install ok installed libsystemd0:amd64 libsystemd0 259~rc2-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.20.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.5+20251123-1 install ok installed libtirpc-common libtirpc-common 1.3.6+ds-1 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.6+ds-1 install ok installed libudev1:amd64 libudev1 259~rc2-1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libunistring5:amd64 libunistring5 1.3-2 install ok installed libuuid1:amd64 libuuid1 2.41.2-4 install ok installed libuv1t64:amd64 libuv1t64 1.51.0-2 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-2 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-2 install ok installed login login 1:4.16.0-2+really2.41.2-4 install ok installed login.defs login.defs 1:4.18.0-2 install ok installed logsave logsave 1.47.2-3+b4 install ok installed macsyfinder macsyfinder 2.1.4-1+b3 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed media-types media-types 14.0.0 install ok installed mount mount 2.41.2-4 install ok installed ncbi-blast+ ncbi-blast+ 2.17.0+ds-6 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg2-6 install ok installed ncbi-vdb-data ncbi-vdb-data 3.2.1+dfsg-2 install ok installed ncurses-base ncurses-base 6.5+20251123-1 install ok installed ncurses-bin ncurses-bin 6.5+20251123-1 install ok installed netbase netbase 6.5 install ok installed openssl openssl 3.5.4-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.5.4-1 install ok installed passwd passwd 1:4.18.0-2 install ok installed perl perl 5.40.1-7 install ok installed perl-base perl-base 5.40.1-7 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u3 install ok installed perl-modules-5.40 perl-modules-5.40 5.40.1-7 install ok installed python3 python3 3.13.7-1 install ok installed python3-autocommand python3-autocommand 2.2.2-3 install ok installed python3-certifi python3-certifi 2025.11.12+ds-1 install ok installed python3-colorama python3-colorama 0.4.6-4 install ok installed python3-colorlog python3-colorlog 6.10.1-1 install ok installed python3-dateutil python3-dateutil 2.9.0-4 install ok installed python3-inflect python3-inflect 7.5.0-1 install ok installed python3-jaraco.context python3-jaraco.context 6.0.1-1 install ok installed python3-jaraco.functools python3-jaraco.functools 4.1.0-1 install ok installed python3-minimal python3-minimal 3.13.7-1 install ok installed python3-more-itertools python3-more-itertools 10.8.0-1 install ok installed python3-networkx python3-networkx 3.4.2-3 install ok installed python3-numpy python3-numpy 1:2.3.5+ds-2 install ok installed python3-numpy-dev:amd64 python3-numpy-dev 1:2.3.5+ds-2 install ok installed python3-packaging python3-packaging 25.0-1 install ok installed python3-pandas python3-pandas 2.3.3+dfsg-2 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 2.3.3+dfsg-2 install ok installed python3-pkg-resources python3-pkg-resources 78.1.1-0.1 install ok installed python3-pytz python3-pytz 2025.2-4 install ok installed python3-six python3-six 1.17.0-2 install ok installed python3-typeguard python3-typeguard 4.4.4-1 install ok installed python3-typing-extensions python3-typing-extensions 4.15.0-1 install ok installed python3-tz python3-tz 2025.2-4 install ok installed python3-yaml python3-yaml 6.0.2-2 install ok installed python3.11 python3.11 3.11.2-6+deb12u6 install ok installed python3.11-minimal python3.11-minimal 3.11.2-6+deb12u6 install ok installed python3.13 python3.13 3.13.9-1 install ok installed python3.13-minimal python3.13-minimal 3.13.9-1 install ok installed readline-common readline-common 8.3-3 install ok installed sed sed 4.9-2 install ok installed sphinx-rtd-theme-common sphinx-rtd-theme-common 3.0.2+dfsg-3 install ok installed sqv sqv 1.3.0-3+b1 install ok installed sse4.2-support sse4.2-support 27 install ok installed sysvinit-utils sysvinit-utils 3.15-6 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2025b-5 install ok installed usr-is-merged usr-is-merged 39+nmu2 install ok installed util-linux util-linux 2.41.2-4 install ok installed util-linux-extra util-linux-extra 2.41.2-4 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 2m19.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m19.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'isa-support:amd64', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libncbi-vdb3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libperl5.40:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libuv1t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'ncbi-vdb-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.36', 'perl-modules-5.40', 'python3', 'python3-autocommand', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pytz', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'python3.13', 'python3.13-minimal', 'readline-common', 'sphinx-rtd-theme-common', 'sse4.2-support', 'macsyfinder'] 2m24.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following package was automatically installed and is no longer required: gcc-14-base Use 'sudo apt autoremove' to remove it. The following packages will be REMOVED: ca-certificates fonts-font-awesome fonts-lato hmmer isa-support libblas3 libdivsufsort3 libexpat1 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libgomp1 libgssapi-krb5-2 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto16 libmbedcrypto7 libmbedtls14 libmbedtls21 libmbedx509-1 libmbedx509-7 libncbi-vdb3 libncursesw6 libnghttp2-14 libnsl2 libpcre3 libperl5.36 libperl5.40 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libpython3.13-minimal libpython3.13-stdlib libquadmath0 libreadline8t64 libtirpc-common libtirpc3t64 libuv1t64 libyaml-0-2 macsyfinder media-types ncbi-blast+ ncbi-data ncbi-vdb-data netbase openssl perl perl-modules-5.36 perl-modules-5.40 python3 python3-autocommand python3-certifi python3-colorama python3-colorlog python3-dateutil python3-inflect python3-jaraco.context python3-jaraco.functools python3-minimal python3-more-itertools python3-networkx python3-numpy python3-numpy-dev python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-pytz python3-six python3-typeguard python3-typing-extensions python3-tz python3-yaml python3.11 python3.11-minimal python3.13 python3.13-minimal readline-common sphinx-rtd-theme-common sse4.2-support 0 upgraded, 0 newly installed, 87 to remove and 0 not upgraded. After this operation, 519 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 ... 19134 files and directories currently installed.) Removing macsyfinder (2.1.4-1+b3) ... Removing python3-certifi (2025.11.12+ds-1) ... Removing ca-certificates (20250419) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing sphinx-rtd-theme-common (3.0.2+dfsg-3) ... Removing fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Removing fonts-lato (2.015-1) ... Removing hmmer (3.4+dfsg-3) ... Removing ncbi-blast+ (2.17.0+ds-6) ... Removing sse4.2-support (27) ... Removing isa-support:amd64 (27) ... Removing python3-pandas (2.3.3+dfsg-2) ... Removing python3-pandas-lib:amd64 (2.3.3+dfsg-2) ... Removing python3-numpy (1:2.3.5+ds-2) ... Removing liblapack3:amd64 (3.12.1-7) ... Removing libblas3:amd64 (3.12.1-7) ... Removing libdivsufsort3:amd64 (2.0.1-7) ... Removing python3.11 (3.11.2-6+deb12u6) ... Removing python3.11-minimal (3.11.2-6+deb12u6) ... Removing python3-yaml (6.0.2-2) ... Removing python3-six (1.17.0-2) ... Removing python3-pkg-resources (78.1.1-0.1) ... Removing python3-inflect (7.5.0-1) ... Removing python3-typeguard (4.4.4-1) ... Removing perl (5.40.1-7) ... Removing libperl5.40:amd64 (5.40.1-7) ... Removing libperl5.36:amd64 (5.36.0-7+deb12u3) ... Removing libgdbm-compat4t64:amd64 (1.26-1) ... Removing libgdbm6t64:amd64 (1.26-1) ... Removing libgfortran5:amd64 (15.2.0-9) ... Removing libgomp1:amd64 (15.2.0-9) ... Removing libpython3.11-stdlib:amd64 (3.11.2-6+deb12u6) ... Removing libnsl2:amd64 (1.3.0-3+b3) ... Removing libtirpc3t64:amd64 (1.3.6+ds-1) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libgssapi-krb5-2:amd64 (1.22.1-2) ... Removing libjs-jquery (3.7.1+dfsg+~3.5.33-1) ... Removing libjs-sphinxdoc (8.2.3-10) ... Removing libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Removing libkrb5-3:amd64 (1.22.1-2) ... Removing libk5crypto3:amd64 (1.22.1-2) ... Removing libkeyutils1:amd64 (1.6.3-6) ... Removing libkrb5support0:amd64 (1.22.1-2) ... Removing liblmdb0:amd64 (0.9.31-1+b2) ... Removing libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Removing libmbedtls21:amd64 (3.6.5-0.1) ... Removing libmbedx509-7:amd64 (3.6.5-0.1) ... Removing libmbedcrypto16:amd64 (3.6.5-0.1) ... Removing libmbedtls14:amd64 (2.28.3-1) ... Removing libmbedx509-1:amd64 (2.28.3-1) ... Removing libmbedcrypto7:amd64 (2.28.3-1) ... Removing libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Removing libpcre3:amd64 (2:8.39-15) ... dpkg: warning: while removing libpcre3:amd64, directory '/lib/x86_64-linux-gnu' not empty so not removed Removing libpython3.11-minimal:amd64 (3.11.2-6+deb12u6) ... Removing libquadmath0:amd64 (15.2.0-9) ... Removing libtirpc-common (1.3.6+ds-1) ... Removing libuv1t64:amd64 (1.51.0-2) ... Removing libyaml-0-2:amd64 (0.2.5-2) ... Removing ncbi-data (6.1.20170106+dfsg2-6) ... Removing ncbi-vdb-data (3.2.1+dfsg-2) ... Removing openssl (3.5.4-1) ... Removing perl-modules-5.36 (5.36.0-7+deb12u3) ... Removing perl-modules-5.40 (5.40.1-7) ... Removing python3-autocommand (2.2.2-3) ... Removing python3-colorama (0.4.6-4) ... Removing python3-colorlog (6.10.1-1) ... Removing python3-dateutil (2.9.0-4) ... Removing python3-jaraco.context (6.0.1-1) ... Removing python3-jaraco.functools (4.1.0-1) ... Removing python3-more-itertools (10.8.0-1) ... Removing python3-networkx (3.4.2-3) ... Removing python3-numpy-dev:amd64 (1:2.3.5+ds-2) ... Removing python3-packaging (25.0-1) ... Removing python3-tz (2025.2-4) ... Removing python3-pytz (2025.2-4) ... Removing python3-typing-extensions (4.15.0-1) ... Removing python3 (3.13.7-1) ... Removing python3.13 (3.13.9-1) ... Removing libpython3-stdlib:amd64 (3.13.7-1) ... Removing libpython3.13-stdlib:amd64 (3.13.9-1) ... find: '/usr/lib/python3': No such file or directory Removing libncursesw6:amd64 (6.5+20251123-1) ... Removing python3-minimal (3.13.7-1) ... Removing libreadline8t64:amd64 (8.3-3) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing media-types (14.0.0) ... Removing netbase (6.5) ... Removing readline-common (8.3-3) ... Removing python3.13-minimal (3.13.9-1) ... Removing libexpat1:amd64 (2.7.3-1) ... Removing libpython3.13-minimal:amd64 (3.13.9-1) ... find: '/usr/lib/python3': No such file or directory Processing triggers for libc-bin (2.41-12) ... 2m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'isa-support:amd64', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libncbi-vdb3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libperl5.40:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libuv1t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'ncbi-vdb-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.36', 'perl-modules-5.40', 'python3', 'python3-autocommand', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pytz', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'python3.13', 'python3.13-minimal', 'readline-common', 'sphinx-rtd-theme-common', 'sse4.2-support', 'macsyfinder'] 2m24.9s INFO: Running scripts post_remove 2m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_remove_exceptions'] 2m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_remove_exceptions'] 2m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--purge', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'isa-support:amd64', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libncbi-vdb3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libperl5.40:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libuv1t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+', 'ncbi-data', 'ncbi-vdb-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.36', 'perl-modules-5.40', 'python3', 'python3-autocommand', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pytz', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'python3.13', 'python3.13-minimal', 'readline-common', 'sphinx-rtd-theme-common', 'sse4.2-support'] 2m25.2s DUMP: (Reading database ... 5419 files and directories currently installed.) Purging configuration files for ca-certificates (20250419) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... dpkg: warning: ignoring request to remove fonts-lato which isn't installed dpkg: warning: ignoring request to remove hmmer which isn't installed dpkg: warning: ignoring request to remove isa-support which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libdivsufsort3 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which isn't installed dpkg: warning: ignoring request to remove libgdbm6t64 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.22.1-2) ... Purging configuration files for libjs-jquery (3.7.1+dfsg+~3.5.33-1) ... dpkg: warning: ignoring request to remove libjs-sphinxdoc which isn't installed dpkg: warning: ignoring request to remove libjs-underscore 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 liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto16 which isn't installed 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 libmbedtls21 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-7 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libpcre3 which isn't installed dpkg: warning: ignoring request to remove libperl5.36 which isn't installed dpkg: warning: ignoring request to remove libperl5.40 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.2-6+deb12u6) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed Purging configuration files for libpython3.13-minimal:amd64 (3.13.9-1) ... dpkg: warning: ignoring request to remove libpython3.13-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.3-3) ... Purging configuration files for libtirpc-common (1.3.6+ds-1) ... Purging configuration files for libtirpc3t64:amd64 (1.3.6+ds-1) ... dpkg: warning: ignoring request to remove libuv1t64 which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed Purging configuration files for media-types (14.0.0) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg2-6) ... Purging configuration files for ncbi-vdb-data (3.2.1+dfsg-2) ... Purging configuration files for netbase (6.5) ... Purging configuration files for openssl (3.5.4-1) ... Purging configuration files for perl (5.40.1-7) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed dpkg: warning: ignoring request to remove perl-modules-5.40 which isn't installed Purging configuration files for python3 (3.13.7-1) ... dpkg: warning: ignoring request to remove python3-autocommand which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-colorama which isn't installed dpkg: warning: ignoring request to remove python3-colorlog which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-inflect which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.context which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.functools which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-more-itertools which isn't installed dpkg: warning: ignoring request to remove python3-networkx which isn't installed Purging configuration files for python3-numpy (1:2.3.5+ds-2) ... dpkg: warning: ignoring request to remove python3-numpy-dev which isn't installed dpkg: warning: ignoring request to remove python3-packaging which isn't installed dpkg: warning: ignoring request to remove python3-pandas which isn't installed dpkg: warning: ignoring request to remove python3-pandas-lib which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-pytz which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-typeguard which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3-yaml which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed Purging configuration files for python3.11-minimal (3.11.2-6+deb12u6) ... dpkg: warning: ignoring request to remove python3.13 which isn't installed Purging configuration files for python3.13-minimal (3.13.9-1) ... Purging configuration files for readline-common (8.3-3) ... dpkg: warning: ignoring request to remove sphinx-rtd-theme-common which isn't installed Purging configuration files for sse4.2-support (27) ... 2m25.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--purge', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'isa-support:amd64', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libncbi-vdb3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libperl5.40:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libuv1t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+', 'ncbi-data', 'ncbi-vdb-data', 'netbase', 'openssl', 'perl', 'perl-modules-5.36', 'perl-modules-5.40', 'python3', 'python3-autocommand', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pytz', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'python3.13', 'python3.13-minimal', 'readline-common', 'sphinx-rtd-theme-common', 'sse4.2-support'] 2m25.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--purge', 'macsyfinder'] 2m25.3s DUMP: (Reading database ... 5399 files and directories currently installed.) Purging configuration files for macsyfinder (2.1.4-1+b3) ... 2m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--purge', 'macsyfinder'] 2m25.3s INFO: Running scripts post_purge 2m25.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_purge_exceptions'] 2m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_purge_exceptions'] 2m25.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--purge', '--pending'] 2m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--purge', '--pending'] 2m25.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--remove', '--pending'] 2m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg', '--remove', '--pending'] 2m25.3s INFO: Running scripts post_test 2m25.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_test_exceptions'] 2m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'tmp/scripts/post_test_exceptions'] 2m25.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m25.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m25.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg-divert', '--list'] 2m25.8s 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 2m25.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'dpkg-divert', '--list'] 2m25.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'clean'] 2m25.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvm0xqior', 'apt-get', 'clean'] 2m25.9s DEBUG: Recording chroot state 2m27.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/shm'] 2m27.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/shm'] 2m27.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/console'] 2m27.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/console'] 2m27.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/ptmx'] 2m27.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/ptmx'] 2m27.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/pts'] 2m27.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/dev/pts'] 2m27.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/proc'] 2m27.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvm0xqior/proc'] 2m27.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m27.4s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpvm0xqior'] 2m27.4s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpvm0xqior 2m27.4s INFO: PASS: Upgrading between Debian distributions. 2m27.4s INFO: PASS: All tests. 2m27.4s INFO: piuparts run ends. ret=0 End: 2025-12-01 11:07:40 GMT