Start: 2025-03-17 06:38:19 GMT
Package: python3-biom-format
Source: python-biom-format (2.1.16-1)
Version: 2.1.16-1+b5
Installed-Size: 894
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Architecture: amd64
Provides: biom-format-tools
Depends: python3-h5py, python3-numpy2-abi0 | python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.13~), python3-click, python3-numpy, python3-pandas, python3-scipy, python3:any, libc6 (>= 2.4)
Suggests: python-biom-format-doc
Description: Biological Observation Matrix (BIOM) format (Python 3)
Homepage: https://biom-format.org/
Description-md5: a8e1165fb97cc05bc8c23295225341cd
Section: python
Priority: optional
Filename: pool/main/p/python-biom-format/python3-biom-format_2.1.16-1+b5_amd64.deb
Size: 151260
MD5sum: eb93b0574f745cd56fcbd4883d476696
SHA256: 3f0dc2869068b7e0331a156c17f6e9814b69f12c7b5e8af5b622fa17cff2d3eb
Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/piuparts --install-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt python3-biom-format=2.1.16-1+b5
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 1.5.2~202503162239~1.5.1-10-g345d5865 starting up.
0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/bin/piuparts --install-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt python3-biom-format=2.1.16-1+b5
0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-34-amd64 #1 SMP Debian 5.10.234-1 (2025-02-24) x86_64
0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp6bzo0svv
0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp6bzo0svv
0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz']
0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz']
0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/proc']
0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/proc']
0m0.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/pts']
0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/pts']
0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/ptmx']
0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/ptmx']
0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/8', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/console']
0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/8', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/console']
0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/shm']
0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/shm']
0m0.5s DEBUG: sources.list:
deb http://deb.debian.org/debian/ sid main
0m0.5s DEBUG: Created policy-rc.d and chmodded it.
0m0.5s DEBUG: Created resolv.conf.
0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp6bzo0svv/tmp/scripts/
0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts-leftovers to /srv/piuparts.debian.org/tmp/tmp6bzo0svv/tmp/scripts/
0m0.5s INFO: Running scripts post_chroot_unpack
0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated']
0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated']
0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'update']
0m3.1s DUMP:
Get:1 http://deb.debian.org/debian sid InRelease [205 kB]
Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.1 MB]
Get:3 http://deb.debian.org/debian sid/main Translation-en [7383 kB]
Fetched 17.7 MB in 2s (9575 kB/s)
Reading package lists...
0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'update']
0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-yf', 'dist-upgrade']
0m4.5s DUMP:
Reading package lists...
Building dependency tree...
Calculating upgrade...
The following packages will be upgraded:
libselinux1 libsemanage-common libsemanage2 libsepol2 login.defs passwd
6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
Need to get 1898 kB of archives.
After this operation, 9216 B of additional disk space will be used.
Get:1 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.8.1-1 [84.7 kB]
Get:2 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.17.3-2 [186 kB]
Get:3 http://deb.debian.org/debian sid/main amd64 libsemanage-common all 3.8.1-1 [7812 B]
Get:4 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.8.1-1 [296 kB]
Get:5 http://deb.debian.org/debian sid/main amd64 libsemanage2 amd64 3.8.1-1 [95.3 kB]
Get:6 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.17.3-2 [1228 kB]
Fetched 1898 kB in 0s (25.7 MB/s)
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Preparing to unpack .../libselinux1_3.8.1-1_amd64.deb ...
Unpacking libselinux1:amd64 (3.8.1-1) over (3.8-4) ...
Setting up libselinux1:amd64 (3.8.1-1) ...
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(Reading database ... 4908 files and directories currently installed.)
Preparing to unpack .../login.defs_1%3a4.17.3-2_all.deb ...
Unpacking login.defs (1:4.17.3-2) over (1:4.17.3-1) ...
Preparing to unpack .../libsemanage-common_3.8.1-1_all.deb ...
Unpacking libsemanage-common (3.8.1-1) over (3.8-1) ...
Preparing to unpack .../libsepol2_3.8.1-1_amd64.deb ...
Unpacking libsepol2:amd64 (3.8.1-1) over (3.8-1) ...
Preparing to unpack .../libsemanage2_3.8.1-1_amd64.deb ...
Unpacking libsemanage2:amd64 (3.8.1-1) over (3.8-1+b1) ...
Preparing to unpack .../passwd_1%3a4.17.3-2_amd64.deb ...
Unpacking passwd (1:4.17.3-2) over (1:4.17.3-1) ...
Setting up login.defs (1:4.17.3-2) ...
Setting up libsemanage-common (3.8.1-1) ...
Setting up libsepol2:amd64 (3.8.1-1) ...
Setting up libsemanage2:amd64 (3.8.1-1) ...
Setting up passwd (1:4.17.3-2) ...
Processing triggers for libc-bin (2.41-6) ...
0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-yf', 'dist-upgrade']
0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'sh', '-c', 'apt-cache dumpavail | md5sum']
0m5.2s DUMP:
7334a8db44da60fffcf592d163968990 -
0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'sh', '-c', 'apt-cache dumpavail | md5sum']
0m5.2s INFO: Running scripts post_setup
0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_dummy_users']
0m6.1s 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
0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_dummy_users']
0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_fake-essential']
0m7.6s DUMP:
*** Adding fake essential packages ***
Reading package lists...
Building dependency tree...
Reading state information...
init-system-helpers is already the newest version (1.68).
The following additional packages will be installed:
libncursesw6 libproc2-0 libtext-charwidth-perl libtext-wrapi18n-perl procps
sensible-utils ucf
Suggested packages:
dbconfig-mysql | dbconfig-pgsql | dbconfig-sqlite3 | dbconfig-no-thanks
Recommended packages:
libgpm2 psmisc linux-sysctl-defaults
The following NEW packages will be installed:
dbconfig-common libncursesw6 libproc2-0 libtext-charwidth-perl
libtext-wrapi18n-perl procps sensible-utils ucf
0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded.
Need to get 1757 kB of archives.
After this operation, 4946 kB of additional disk space will be used.
Get:1 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.5+20250216-2 [135 kB]
Get:2 http://deb.debian.org/debian sid/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB]
Get:3 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.4-7 [878 kB]
Get:4 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.24 [24.8 kB]
Get:5 http://deb.debian.org/debian sid/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B]
Get:6 http://deb.debian.org/debian sid/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B]
Get:7 http://deb.debian.org/debian sid/main amd64 ucf all 3.0050 [42.7 kB]
Get:8 http://deb.debian.org/debian sid/main amd64 dbconfig-common all 2.0.24 [592 kB]
Preconfiguring packages ...
Fetched 1757 kB in 0s (25.9 MB/s)
Selecting previously unselected package libncursesw6:amd64.
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(Reading database ... 4907 files and directories currently installed.)
Preparing to unpack .../0-libncursesw6_6.5+20250216-2_amd64.deb ...
Unpacking libncursesw6:amd64 (6.5+20250216-2) ...
Selecting previously unselected package libproc2-0:amd64.
Preparing to unpack .../1-libproc2-0_2%3a4.0.4-7_amd64.deb ...
Unpacking libproc2-0:amd64 (2:4.0.4-7) ...
Selecting previously unselected package procps.
Preparing to unpack .../2-procps_2%3a4.0.4-7_amd64.deb ...
Unpacking procps (2:4.0.4-7) ...
Selecting previously unselected package sensible-utils.
Preparing to unpack .../3-sensible-utils_0.0.24_all.deb ...
Unpacking sensible-utils (0.0.24) ...
Selecting previously unselected package libtext-charwidth-perl:amd64.
Preparing to unpack .../4-libtext-charwidth-perl_0.04-11+b4_amd64.deb ...
Unpacking libtext-charwidth-perl:amd64 (0.04-11+b4) ...
Selecting previously unselected package libtext-wrapi18n-perl.
Preparing to unpack .../5-libtext-wrapi18n-perl_0.06-10_all.deb ...
Unpacking libtext-wrapi18n-perl (0.06-10) ...
Selecting previously unselected package ucf.
Preparing to unpack .../6-ucf_3.0050_all.deb ...
Moving old data out of the way
Unpacking ucf (3.0050) ...
Selecting previously unselected package dbconfig-common.
Preparing to unpack .../7-dbconfig-common_2.0.24_all.deb ...
Unpacking dbconfig-common (2.0.24) ...
Setting up libtext-charwidth-perl:amd64 (0.04-11+b4) ...
Setting up libtext-wrapi18n-perl (0.06-10) ...
Setting up libproc2-0:amd64 (2:4.0.4-7) ...
Setting up libncursesw6:amd64 (6.5+20250216-2) ...
Setting up sensible-utils (0.0.24) ...
Setting up procps (2:4.0.4-7) ...
Setting up ucf (3.0050) ...
Setting up dbconfig-common (2.0.24) ...
Creating config file /etc/dbconfig-common/config with new version
Processing triggers for libc-bin (2.41-6) ...
0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_fake-essential']
0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_forbid_home']
0m7.6s DUMP:
Disabling /home
Adding 'local diversion of /home to /home.distrib'
0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_forbid_home']
0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_force-unsafe-io']
0m7.7s DUMP:
Enabling dpkg --force-unsafe-io.
Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib'
Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged'
'/bin/sync' -> 'true'
0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_force-unsafe-io']
0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_minimize']
0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_minimize']
0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_squeeze-backports']
0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_squeeze-backports']
0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_zz_backports']
0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_setup_zz_backports']
0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'clean']
0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'clean']
0m7.8s DEBUG: Recording chroot state
0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m8.5s DUMP:
install ok installed apt apt 2.9.33
install ok installed base-files base-files 13.7
install ok installed base-passwd base-passwd 3.6.6
install ok installed bash bash 5.2.37-1.1+b1
install ok installed bsdutils bsdutils 1:2.40.4-5
install ok installed coreutils coreutils 9.5-1+b1
install ok installed dash dash 0.5.12-12
install ok installed dbconfig-common dbconfig-common 2.0.24
install ok installed debconf debconf 1.5.91
install ok installed debian-archive-keyring debian-archive-keyring 2023.4
install ok installed debianutils debianutils 5.21
install ok installed diffutils diffutils 1:3.10-2
install ok installed dpkg dpkg 1.22.18
install ok installed findutils findutils 4.10.0-3
install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-19
install ok installed grep grep 3.11-4
install ok installed gzip gzip 1.13-1
install ok installed hostname hostname 3.25
install ok installed init-system-helpers init-system-helpers 1.68
install ok installed libacl1:amd64 libacl1 2.3.2-2+b1
install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 2.9.33
install ok installed libattr1:amd64 libattr1 1:2.5.2-3
install ok installed libaudit-common libaudit-common 1:4.0.2-2
install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2+b2
install ok installed libblkid1:amd64 libblkid1 2.40.4-5
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 2.41-6
install ok installed libc6:amd64 libc6 2.41-6
install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b1
install ok installed libcap2:amd64 libcap2 1:2.75-2
install ok installed libcrypt1:amd64 libcrypt1 1:4.4.38-1
install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9
install ok installed libdebconfclient0:amd64 libdebconfclient0 0.277
install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-19
install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3
install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.1-1
install ok installed liblz4-1:amd64 liblz4-1 1.10.0-4
install ok installed liblzma5:amd64 liblzma5 5.6.4-1
install ok installed libmd0:amd64 libmd0 1.1.0-2+b1
install ok installed libmount1:amd64 libmount1 2.40.4-5
install ok installed libncursesw6:amd64 libncursesw6 6.5+20250216-2
install ok installed libnettle8t64:amd64 libnettle8t64 3.10.1-1
install ok installed libpam-modules:amd64 libpam-modules 1.7.0-3
install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-3
install ok installed libpam-runtime libpam-runtime 1.7.0-3
install ok installed libpam0g:amd64 libpam0g 1.7.0-3
install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.45-1
install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-7
install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2+b1
install ok installed libselinux1:amd64 libselinux1 3.8.1-1
install ok installed libsemanage-common libsemanage-common 3.8.1-1
install ok installed libsemanage2:amd64 libsemanage2 3.8.1-1
install ok installed libsepol2:amd64 libsepol2 3.8.1-1
install ok installed libsmartcols1:amd64 libsmartcols1 2.40.4-5
install ok installed libssl3t64:amd64 libssl3t64 3.4.1-1
install ok installed libstdc++6:amd64 libstdc++6 14.2.0-19
install ok installed libsystemd0:amd64 libsystemd0 257.4-3
install ok installed libtext-charwidth-perl:amd64 libtext-charwidth-perl 0.04-11+b4
install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-10
install ok installed libtinfo6:amd64 libtinfo6 6.5+20250216-2
install ok installed libudev1:amd64 libudev1 257.4-3
install ok installed libuuid1:amd64 libuuid1 2.40.4-5
install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2
install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-1
install ok installed login login 1:4.16.0-2+really2.40.4-5
install ok installed login.defs login.defs 1:4.17.3-2
install ok installed mawk mawk 1.3.4.20250131-1
install ok installed mount mount 2.40.4-5
install ok installed ncurses-base ncurses-base 6.5+20250216-2
install ok installed ncurses-bin ncurses-bin 6.5+20250216-2
install ok installed openssl-provider-legacy openssl-provider-legacy 3.4.1-1
install ok installed passwd passwd 1:4.17.3-2
install ok installed perl-base perl-base 5.40.1-2
install ok installed procps procps 2:4.0.4-7
install ok installed sed sed 4.9-2
install ok installed sensible-utils sensible-utils 0.0.24
install ok installed sqv sqv 1.2.1-6+b1
install ok installed sysvinit-utils sysvinit-utils 3.14-4
install ok installed tar tar 1.35+dfsg-3.1
install ok installed tzdata tzdata 2025a-2
install ok installed ucf ucf 3.0050
install ok installed usr-is-merged usr-is-merged 39+nmu2
install ok installed util-linux util-linux 2.40.4-5
install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1
0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-divert', '--list']
0m8.5s DUMP:
local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged
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 /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
0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-divert', '--list']
0m8.5s INFO: Running scripts is_testable
0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/is_testable_uninstallable']
0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/is_testable_uninstallable']
0m8.5s INFO: apt-cache does not know about any of the requested packages
0m8.5s INFO: Running scripts pre_test
0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_test_exceptions']
0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_test_exceptions']
0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_test_root_password']
0m8.5s DUMP:
New password: Retype new password: passwd: password updated successfully
0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_test_root_password']
0m8.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m9.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m9.3s DEBUG: No broken symlinks as far as we can find.
0m9.3s INFO: Running scripts pre_install
0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_database-server']
0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_database-server']
0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_exceptions']
0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_exceptions']
0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_extras']
0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_extras']
0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture']
0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture']
0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'show', '--no-all-versions', 'python3-biom-format=2.1.16-1+b5']
0m10.3s DUMP:
Package: python3-biom-format
Source: python-biom-format (2.1.16-1)
Version: 2.1.16-1+b5
Installed-Size: 894
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Architecture: amd64
Provides: biom-format-tools
Depends: python3-h5py, python3-numpy2-abi0 | python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.13~), python3-click, python3-numpy, python3-pandas, python3-scipy, python3:any, libc6 (>= 2.4)
Suggests: python-biom-format-doc
Description-en: Biological Observation Matrix (BIOM) format (Python 3)
The BIOM file format (canonically pronounced biome) is designed to be a
general-use format for representing biological sample by observation
contingency tables. BIOM is a recognized standard for the Earth
Microbiome Project and is a Genomics Standards Consortium candidate
project.
.
The BIOM format is designed for general use in broad areas of
comparative -omics. For example, in marker-gene surveys, the primary use
of this format is to represent OTU tables: the observations in this case
are OTUs and the matrix contains counts corresponding to the number of
times each OTU is observed in each sample. With respect to metagenome
data, this format would be used to represent metagenome tables: the
observations in this case might correspond to SEED subsystems, and the
matrix would contain counts corresponding to the number of times each
subsystem is observed in each metagenome. Similarly, with respect to
genome data, this format may be used to represent a set of genomes: the
observations in this case again might correspond to SEED subsystems, and
the counts would correspond to the number of times each subsystem is
observed in each genome.
.
This package provides the BIOM format library for the Python 3 interpreter.
Description-md5: a8e1165fb97cc05bc8c23295225341cd
Homepage: https://biom-format.org/
Section: python
Priority: optional
Filename: pool/main/p/python-biom-format/python3-biom-format_2.1.16-1+b5_amd64.deb
Size: 151260
MD5sum: eb93b0574f745cd56fcbd4883d476696
SHA256: 3f0dc2869068b7e0331a156c17f6e9814b69f12c7b5e8af5b622fa17cff2d3eb
0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'show', '--no-all-versions', 'python3-biom-format=2.1.16-1+b5']
0m10.3s DEBUG: metapackage:
Package: piuparts-depends-dummy
Version: 0.invalid.0
Architecture: amd64
Maintainer: piuparts developers team <piuparts-devel@alioth-lists.debian.net>
Depends: python3-h5py, python3-numpy2-abi0 | python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.13~), python3-click, python3-numpy, python3-pandas, python3-scipy, python3:any, libc6 (>= 2.4)
Description: Dummy package to satisfy dependencies - created by piuparts
This package was created automatically by piuparts and can safely be removed
0m10.3s DEBUG: Starting command: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmp_djw4300/piuparts-depends-dummy']
0m10.3s DUMP:
dpkg-deb: warning: not checking contents of control area
dpkg-deb: building an unknown package in '/srv/piuparts.debian.org/tmp/tmp_djw4300/piuparts-depends-dummy.deb'.
0m10.3s DEBUG: Command ok: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmp_djw4300/piuparts-depends-dummy']
0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt']
0m10.3s DUMP:
2.9.33
0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt']
0m10.3s DEBUG: Copying /srv/piuparts.debian.org/tmp/tmp_djw4300/piuparts-depends-dummy.deb to /srv/piuparts.debian.org/tmp/tmp6bzo0svv/tmp
0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb']
0m26.9s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
libaec0 libblas3 libbrotli1 libcom-err2 libcurl4t64 libexpat1 libffi8
libgfortran5 libgnutls30t64 libgssapi-krb5-2 libhdf5-310 libhdf5-hl-310
libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3
libldap2 liblzf1 libnghttp2-14 libnghttp3-9 libp11-kit0 libpsl5t64
libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libreadline8t64
librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1t64 libsz2
libtasn1-6 libunistring5 media-types netbase python3 python3-click
python3-dateutil python3-decorator python3-h5py python3-h5py-serial
python3-minimal python3-numpy python3-numpy-dev python3-pandas
python3-pandas-lib python3-pytz python3-scipy python3-tz python3.13
python3.13-minimal readline-common
Suggested packages:
gnutls-bin krb5-doc krb5-user python3-doc python3-tk python3-venv
python-h5py-doc gcc gfortran python-numpy-doc python3-dev python3-pytest
python-pandas-doc python3-statsmodels python-scipy-doc python3.13-venv
python3.13-doc binutils binfmt-support readline-doc
Recommended packages:
ca-certificates krb5-locales libldap-common publicsuffix libsasl2-modules
python3-matplotlib python3-bottleneck python3-numexpr python3-odf
python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables
python3-jinja2 python3-numba g++ | c++-compiler python3-pil python3-pooch
python3-yaml
The following NEW packages will be installed:
libaec0 libblas3 libbrotli1 libcom-err2 libcurl4t64 libexpat1 libffi8
libgfortran5 libgnutls30t64 libgssapi-krb5-2 libhdf5-310 libhdf5-hl-310
libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3
libldap2 liblzf1 libnghttp2-14 libnghttp3-9 libp11-kit0 libpsl5t64
libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libreadline8t64
librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1t64 libsz2
libtasn1-6 libunistring5 media-types netbase piuparts-depends-dummy python3
python3-click python3-dateutil python3-decorator python3-h5py
python3-h5py-serial python3-minimal python3-numpy python3-numpy-dev
python3-pandas python3-pandas-lib python3-pytz python3-scipy python3-tz
python3.13 python3.13-minimal readline-common
0 upgraded, 56 newly installed, 0 to remove and 0 not upgraded.
Need to get 47.2 MB/47.2 MB of archives.
After this operation, 216 MB of additional disk space will be used.
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Get:2 http://deb.debian.org/debian sid/main amd64 libpython3.13-minimal amd64 3.13.2-2 [859 kB]
Get:3 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.7.0-1 [107 kB]
Get:4 http://deb.debian.org/debian sid/main amd64 python3.13-minimal amd64 3.13.2-2 [2210 kB]
Get:5 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.13.2-2 [27.1 kB]
Get:6 http://deb.debian.org/debian sid/main amd64 media-types all 13.0.0 [29.3 kB]
Get:7 http://deb.debian.org/debian sid/main amd64 netbase all 6.5 [12.4 kB]
Get:8 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB]
Get:9 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-6 [69.4 kB]
Get:10 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-6 [169 kB]
Get:11 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-2 [913 kB]
Get:12 http://deb.debian.org/debian sid/main amd64 libpython3.13-stdlib amd64 3.13.2-2 [1952 kB]
Get:13 http://deb.debian.org/debian sid/main amd64 python3.13 amd64 3.13.2-2 [746 kB]
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Get:17 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.1-2 [160 kB]
Get:18 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-19 [836 kB]
Get:19 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.1-2 [2452 kB]
Get:20 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:2.2.3+ds-5 [5084 kB]
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Get:22 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB]
Get:23 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.2-1+b1 [24.3 kB]
Get:24 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB]
Get:25 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB]
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Get:29 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.3-1 [476 kB]
Get:30 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.8-2 [109 kB]
Get:31 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB]
Get:32 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB]
Get:33 http://deb.debian.org/debian sid/main amd64 libldap2 amd64 2.6.9+dfsg-2 [194 kB]
Get:34 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB]
Get:35 http://deb.debian.org/debian sid/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB]
Get:36 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB]
Get:37 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB]
Get:38 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB]
Get:39 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB]
Get:40 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB]
Get:41 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB]
Get:42 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.12.1-3 [369 kB]
Get:43 http://deb.debian.org/debian sid/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B]
Get:44 http://deb.debian.org/debian sid/main amd64 libhdf5-310 amd64 1.14.5+repack-3 [1344 kB]
Get:45 http://deb.debian.org/debian sid/main amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [69.3 kB]
Get:46 http://deb.debian.org/debian sid/main amd64 liblzf1 amd64 3.6-4+b3 [10.1 kB]
Get:47 http://deb.debian.org/debian sid/main amd64 python3-click all 8.2.0+0.really.8.1.8-1 [95.4 kB]
Get:48 http://deb.debian.org/debian sid/main amd64 python3-dateutil all 2.9.0-3 [79.3 kB]
Get:49 http://deb.debian.org/debian sid/main amd64 python3-decorator all 5.1.1-5 [15.1 kB]
Get:50 http://deb.debian.org/debian sid/main amd64 python3-h5py-serial amd64 3.13.0-1+b1 [1065 kB]
Get:51 http://deb.debian.org/debian sid/main amd64 python3-h5py all 3.13.0-1 [15.0 kB]
Get:52 http://deb.debian.org/debian sid/main amd64 python3-pytz all 2025.1-3 [150 kB]
Get:53 http://deb.debian.org/debian sid/main amd64 python3-tz all 2025.1-3 [4004 B]
Get:54 http://deb.debian.org/debian sid/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-8+b1 [4517 kB]
Get:55 http://deb.debian.org/debian sid/main amd64 python3-pandas all 2.2.3+dfsg-8 [3097 kB]
Get:56 http://deb.debian.org/debian sid/main amd64 python3-scipy amd64 1.15.2-5 [16.3 MB]
Fetched 47.2 MB in 1s (86.8 MB/s)
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Preparing to unpack .../00-python3_3.13.2-2_amd64.deb ...
Unpacking python3 (3.13.2-2) ...
Selecting previously unselected package python3-numpy-dev:amd64.
Preparing to unpack .../01-python3-numpy-dev_1%3a2.2.3+ds-5_amd64.deb ...
Unpacking python3-numpy-dev:amd64 (1:2.2.3+ds-5) ...
Selecting previously unselected package libblas3:amd64.
Preparing to unpack .../02-libblas3_3.12.1-2_amd64.deb ...
Unpacking libblas3:amd64 (3.12.1-2) ...
Selecting previously unselected package libgfortran5:amd64.
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Unpacking libgfortran5:amd64 (14.2.0-19) ...
Selecting previously unselected package liblapack3:amd64.
Preparing to unpack .../04-liblapack3_3.12.1-2_amd64.deb ...
Unpacking liblapack3:amd64 (3.12.1-2) ...
Selecting previously unselected package python3-numpy.
Preparing to unpack .../05-python3-numpy_1%3a2.2.3+ds-5_amd64.deb ...
Unpacking python3-numpy (1:2.2.3+ds-5) ...
Selecting previously unselected package libaec0:amd64.
Preparing to unpack .../06-libaec0_1.1.3-1+b1_amd64.deb ...
Unpacking libaec0:amd64 (1.1.3-1+b1) ...
Selecting previously unselected package libbrotli1:amd64.
Preparing to unpack .../07-libbrotli1_1.1.0-2+b7_amd64.deb ...
Unpacking libbrotli1:amd64 (1.1.0-2+b7) ...
Selecting previously unselected package libcom-err2:amd64.
Preparing to unpack .../08-libcom-err2_1.47.2-1+b1_amd64.deb ...
Unpacking libcom-err2:amd64 (1.47.2-1+b1) ...
Selecting previously unselected package libkrb5support0:amd64.
Preparing to unpack .../09-libkrb5support0_1.21.3-5_amd64.deb ...
Unpacking libkrb5support0:amd64 (1.21.3-5) ...
Selecting previously unselected package libk5crypto3:amd64.
Preparing to unpack .../10-libk5crypto3_1.21.3-5_amd64.deb ...
Unpacking libk5crypto3:amd64 (1.21.3-5) ...
Selecting previously unselected package libkeyutils1:amd64.
Preparing to unpack .../11-libkeyutils1_1.6.3-4_amd64.deb ...
Unpacking libkeyutils1:amd64 (1.6.3-4) ...
Selecting previously unselected package libkrb5-3:amd64.
Preparing to unpack .../12-libkrb5-3_1.21.3-5_amd64.deb ...
Unpacking libkrb5-3:amd64 (1.21.3-5) ...
Selecting previously unselected package libgssapi-krb5-2:amd64.
Preparing to unpack .../13-libgssapi-krb5-2_1.21.3-5_amd64.deb ...
Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ...
Selecting previously unselected package libunistring5:amd64.
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Unpacking libunistring5:amd64 (1.3-1) ...
Selecting previously unselected package libidn2-0:amd64.
Preparing to unpack .../15-libidn2-0_2.3.8-2_amd64.deb ...
Unpacking libidn2-0:amd64 (2.3.8-2) ...
Selecting previously unselected package libsasl2-modules-db:amd64.
Preparing to unpack .../16-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ...
Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ...
Selecting previously unselected package libsasl2-2:amd64.
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Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ...
Selecting previously unselected package libldap2:amd64.
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Unpacking libldap2:amd64 (2.6.9+dfsg-2) ...
Selecting previously unselected package libnghttp2-14:amd64.
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Unpacking libnghttp2-14:amd64 (1.64.0-1) ...
Selecting previously unselected package libnghttp3-9:amd64.
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Unpacking libnghttp3-9:amd64 (1.8.0-1) ...
Selecting previously unselected package libpsl5t64:amd64.
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Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ...
Selecting previously unselected package libp11-kit0:amd64.
Preparing to unpack .../22-libp11-kit0_0.25.5-3_amd64.deb ...
Unpacking libp11-kit0:amd64 (0.25.5-3) ...
Selecting previously unselected package libtasn1-6:amd64.
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Unpacking libtasn1-6:amd64 (4.20.0-2) ...
Selecting previously unselected package libgnutls30t64:amd64.
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Unpacking libgnutls30t64:amd64 (3.8.9-2) ...
Selecting previously unselected package librtmp1:amd64.
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Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Selecting previously unselected package libssh2-1t64:amd64.
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Unpacking libssh2-1t64:amd64 (1.11.1-1) ...
Selecting previously unselected package libcurl4t64:amd64.
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Unpacking libcurl4t64:amd64 (8.12.1-3) ...
Selecting previously unselected package libsz2:amd64.
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Unpacking libsz2:amd64 (1.1.3-1+b1) ...
Selecting previously unselected package libhdf5-310:amd64.
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Unpacking libhdf5-310:amd64 (1.14.5+repack-3) ...
Selecting previously unselected package libhdf5-hl-310:amd64.
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Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-3) ...
Selecting previously unselected package liblzf1:amd64.
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Unpacking liblzf1:amd64 (3.6-4+b3) ...
Selecting previously unselected package python3-click.
Preparing to unpack .../32-python3-click_8.2.0+0.really.8.1.8-1_all.deb ...
Unpacking python3-click (8.2.0+0.really.8.1.8-1) ...
Selecting previously unselected package python3-dateutil.
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Unpacking python3-dateutil (2.9.0-3) ...
Selecting previously unselected package python3-decorator.
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Unpacking python3-decorator (5.1.1-5) ...
Selecting previously unselected package python3-h5py-serial.
Preparing to unpack .../35-python3-h5py-serial_3.13.0-1+b1_amd64.deb ...
Unpacking python3-h5py-serial (3.13.0-1+b1) ...
Selecting previously unselected package python3-h5py.
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Unpacking python3-h5py (3.13.0-1) ...
Selecting previously unselected package python3-pytz.
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Unpacking python3-pytz (2025.1-3) ...
Selecting previously unselected package python3-tz.
Preparing to unpack .../38-python3-tz_2025.1-3_all.deb ...
Unpacking python3-tz (2025.1-3) ...
Selecting previously unselected package python3-pandas-lib:amd64.
Preparing to unpack .../39-python3-pandas-lib_2.2.3+dfsg-8+b1_amd64.deb ...
Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-8+b1) ...
Selecting previously unselected package python3-pandas.
Preparing to unpack .../40-python3-pandas_2.2.3+dfsg-8_all.deb ...
Unpacking python3-pandas (2.2.3+dfsg-8) ...
Selecting previously unselected package python3-scipy.
Preparing to unpack .../41-python3-scipy_1.15.2-5_amd64.deb ...
Unpacking python3-scipy (1.15.2-5) ...
Selecting previously unselected package piuparts-depends-dummy.
Preparing to unpack .../42-piuparts-depends-dummy.deb ...
Unpacking piuparts-depends-dummy (0.invalid.0) ...
Setting up media-types (13.0.0) ...
Setting up libkeyutils1:amd64 (1.6.3-4) ...
Setting up libbrotli1:amd64 (1.1.0-2+b7) ...
Setting up libsqlite3-0:amd64 (3.46.1-2) ...
Setting up libnghttp2-14:amd64 (1.64.0-1) ...
Setting up libcom-err2:amd64 (1.47.2-1+b1) ...
Setting up libaec0:amd64 (1.1.3-1+b1) ...
Setting up libkrb5support0:amd64 (1.21.3-5) ...
Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ...
Setting up libblas3:amd64 (3.12.1-2) ...
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 liblzf1:amd64 (3.6-4+b3) ...
Setting up libunistring5:amd64 (1.3-1) ...
Setting up python3-numpy-dev:amd64 (1:2.2.3+ds-5) ...
Setting up libk5crypto3:amd64 (1.21.3-5) ...
Setting up libsasl2-2:amd64 (2.1.28+dfsg1-9) ...
Setting up libgfortran5:amd64 (14.2.0-19) ...
Setting up libnghttp3-9:amd64 (1.8.0-1) ...
Setting up libffi8:amd64 (3.4.7-1) ...
Setting up libtasn1-6:amd64 (4.20.0-2) ...
Setting up netbase (6.5) ...
Setting up libkrb5-3:amd64 (1.21.3-5) ...
Setting up libssh2-1t64:amd64 (1.11.1-1) ...
Setting up readline-common (8.2-6) ...
Setting up libldap2:amd64 (2.6.9+dfsg-2) ...
Setting up libsz2:amd64 (1.1.3-1+b1) ...
Setting up liblapack3:amd64 (3.12.1-2) ...
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 libidn2-0:amd64 (2.3.8-2) ...
Setting up libp11-kit0:amd64 (0.25.5-3) ...
Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ...
Setting up libreadline8t64:amd64 (8.2-6) ...
Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ...
Setting up libpython3-stdlib:amd64 (3.13.2-2) ...
Setting up libgnutls30t64:amd64 (3.8.9-2) ...
Setting up python3.13 (3.13.2-2) ...
Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ...
Setting up python3 (3.13.2-2) ...
Setting up python3-click (8.2.0+0.really.8.1.8-1) ...
Setting up python3-decorator (5.1.1-5) ...
Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Setting up python3-numpy (1:2.2.3+ds-5) ...
Setting up python3-dateutil (2.9.0-3) ...
Setting up python3-scipy (1.15.2-5) ...
Setting up libcurl4t64:amd64 (8.12.1-3) ...
Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-8+b1) ...
Setting up python3-pytz (2025.1-3) ...
Setting up python3-tz (2025.1-3) ...
Setting up python3-pandas (2.2.3+dfsg-8) ...
Setting up libhdf5-310:amd64 (1.14.5+repack-3) ...
Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3) ...
Setting up python3-h5py-serial (3.13.0-1+b1) ...
Setting up python3-h5py (3.13.0-1) ...
Setting up piuparts-depends-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.41-6) ...
0m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb']
0m26.9s INFO: Installation of ['./tmp/piuparts-depends-dummy.deb'] ok
0m26.9s DEBUG: Removing /srv/piuparts.debian.org/tmp/tmp6bzo0svv/./tmp/piuparts-depends-dummy.deb
0m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy']
0m26.9s DUMP:
piuparts-depends-dummy install ok installed
0m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy']
0m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', 'piuparts-depends-dummy']
0m26.9s DUMP:
(Reading database ... 11536 files and directories currently installed.)
Removing piuparts-depends-dummy (0.invalid.0) ...
0m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', 'piuparts-depends-dummy']
0m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'clean']
0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'clean']
0m27.0s DEBUG: Recording chroot state
0m27.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m28.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m30.2s DEBUG: No broken symlinks as far as we can find.
0m30.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy']
0m31.0s 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:
0m31.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy']
0m31.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy', 'python3-biom-format']
0m31.0s DUMP:
python3-biom-format:
Installed: (none)
Candidate: 2.1.16-1+b5
Version table:
2.1.16-1+b5 500
500 http://deb.debian.org/debian sid/main amd64 Packages
0m31.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy', 'python3-biom-format']
0m31.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', 'install', 'python3-biom-format=2.1.16-1+b5']
0m32.3s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
Suggested packages:
python-biom-format-doc
The following NEW packages will be installed:
python3-biom-format
0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
Need to get 151 kB of archives.
After this operation, 915 kB of additional disk space will be used.
Get:1 http://deb.debian.org/debian sid/main amd64 python3-biom-format amd64 2.1.16-1+b5 [151 kB]
Fetched 151 kB in 0s (3653 kB/s)
Selecting previously unselected package python3-biom-format.
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Preparing to unpack .../python3-biom-format_2.1.16-1+b5_amd64.deb ...
Unpacking python3-biom-format (2.1.16-1+b5) ...
Setting up python3-biom-format (2.1.16-1+b5) ...
0m32.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', 'install', 'python3-biom-format=2.1.16-1+b5']
0m32.3s INFO: Running scripts post_install
0m32.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_install_exceptions']
0m32.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_install_exceptions']
0m32.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'systemd-tmpfiles', '--cat-config']
0m32.3s DUMP:
chroot: failed to run command 'systemd-tmpfiles': No such file or directory
0m32.3s DEBUG: Command failed (status=127), but ignoring error: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'systemd-tmpfiles', '--cat-config']
0m32.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'remove', 'python3-biom-format']
0m33.5s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libaec0 libblas3 libbrotli1 libcom-err2 libcurl4t64 libexpat1 libffi8
libgfortran5 libgnutls30t64 libgssapi-krb5-2 libhdf5-310 libhdf5-hl-310
libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap2
liblzf1 libnghttp2-14 libnghttp3-9 libp11-kit0 libpsl5t64 libpython3-stdlib
libpython3.13-minimal libpython3.13-stdlib libreadline8t64 librtmp1
libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1t64 libsz2 libtasn1-6
media-types netbase python3 python3-click python3-dateutil python3-decorator
python3-h5py python3-h5py-serial python3-minimal python3-numpy
python3-numpy-dev python3-pandas python3-pandas-lib python3-pytz
python3-scipy python3-tz python3.13 python3.13-minimal readline-common
Use 'sudo apt autoremove' to remove them.
The following packages will be REMOVED:
python3-biom-format
0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded.
After this operation, 915 kB disk space will be freed.
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(Reading database ... 11594 files and directories currently installed.)
Removing python3-biom-format (2.1.16-1+b5) ...
0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'remove', 'python3-biom-format']
0m33.5s INFO: Reinstalling after remove
0m33.5s INFO: Running scripts pre_install
0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_database-server']
0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_database-server']
0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_exceptions']
0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_exceptions']
0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_extras']
0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_extras']
0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture']
0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture']
0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy']
0m33.6s 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:
0m33.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy']
0m33.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy', 'python3-biom-format']
0m33.7s DUMP:
python3-biom-format:
Installed: (none)
Candidate: 2.1.16-1+b5
Version table:
2.1.16-1+b5 500
500 http://deb.debian.org/debian sid/main amd64 Packages
0m33.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy', 'python3-biom-format']
0m33.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', 'install', 'python3-biom-format=2.1.16-1+b5']
0m35.1s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
Suggested packages:
python-biom-format-doc
The following NEW packages will be installed:
python3-biom-format
0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
Need to get 0 B/151 kB of archives.
After this operation, 915 kB of additional disk space will be used.
Selecting previously unselected package python3-biom-format.
(Reading database ...
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(Reading database ... 100%
(Reading database ... 11536 files and directories currently installed.)
Preparing to unpack .../python3-biom-format_2.1.16-1+b5_amd64.deb ...
Unpacking python3-biom-format (2.1.16-1+b5) ...
Setting up python3-biom-format (2.1.16-1+b5) ...
0m35.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', 'install', 'python3-biom-format=2.1.16-1+b5']
0m35.1s INFO: Running scripts post_install
0m35.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_install_exceptions']
0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_install_exceptions']
0m35.2s INFO: Running scripts pre_install
0m35.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_database-server']
0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_database-server']
0m35.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_exceptions']
0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_exceptions']
0m35.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_extras']
0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_extras']
0m35.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture']
0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture']
0m35.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m35.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m35.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy']
0m35.3s DUMP:
Package files:
100 /var/lib/dpkg/status
release a=now
500 http://deb.debian.org/debian sid/main amd64 Packages
release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64
origin deb.debian.org
Pinned packages:
0m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy']
0m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy', 'python3-biom-format']
0m35.3s DUMP:
python3-biom-format:
Installed: 2.1.16-1+b5
Candidate: 2.1.16-1+b5
Version table:
*** 2.1.16-1+b5 500
500 http://deb.debian.org/debian sid/main amd64 Packages
100 /var/lib/dpkg/status
0m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-cache', 'policy', 'python3-biom-format']
0m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', 'install', '--reinstall', 'python3-biom-format=2.1.16-1+b5']
0m36.5s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
0 upgraded, 0 newly installed, 1 reinstalled, 0 to remove and 0 not upgraded.
Need to get 0 B/151 kB of archives.
After this operation, 0 B of additional disk space will be used.
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(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 11594 files and directories currently installed.)
Preparing to unpack .../python3-biom-format_2.1.16-1+b5_amd64.deb ...
Unpacking python3-biom-format (2.1.16-1+b5) over (2.1.16-1+b5) ...
Setting up python3-biom-format (2.1.16-1+b5) ...
0m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', '-y', 'install', '--reinstall', 'python3-biom-format=2.1.16-1+b5']
0m36.5s INFO: Running scripts post_install
0m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_install_exceptions']
0m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_install_exceptions']
0m36.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m37.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m38.6s DEBUG: No broken symlinks as far as we can find.
0m39.3s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', '-ac', '--ignore-obsolete']
0m40.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', '-ac', '--ignore-obsolete']
0m40.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate']
0m40.5s DUMP:
0.15.6
0m40.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate']
0m40.5s INFO: Running adequate version 0.15.6 now.
0m40.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'python3-biom-format']
0m40.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'python3-biom-format']
0m40.6s INFO: Running scripts pre_remove
0m40.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_40_find_missing_md5sums']
0m40.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_40_find_missing_md5sums']
0m40.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles']
0m40.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles']
0m40.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_40_find_unowned_lib_links']
0m41.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_40_find_unowned_lib_links']
0m41.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_50_find_bad_permissions']
0m41.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_50_find_bad_permissions']
0m41.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_50_find_missing_copyright']
0m41.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_50_find_missing_copyright']
0m41.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_exceptions']
0m42.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_exceptions']
0m42.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_preseed_cleanup']
0m42.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/pre_remove_preseed_cleanup']
0m42.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m42.0s DUMP:
install ok installed apt apt 2.9.33
install ok installed base-files base-files 13.7
install ok installed base-passwd base-passwd 3.6.6
install ok installed bash bash 5.2.37-1.1+b1
install ok installed bsdutils bsdutils 1:2.40.4-5
install ok installed coreutils coreutils 9.5-1+b1
install ok installed dash dash 0.5.12-12
install ok installed dbconfig-common dbconfig-common 2.0.24
install ok installed debconf debconf 1.5.91
install ok installed debian-archive-keyring debian-archive-keyring 2023.4
install ok installed debianutils debianutils 5.21
install ok installed diffutils diffutils 1:3.10-2
install ok installed dpkg dpkg 1.22.18
install ok installed findutils findutils 4.10.0-3
install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-19
install ok installed grep grep 3.11-4
install ok installed gzip gzip 1.13-1
install ok installed hostname hostname 3.25
install ok installed init-system-helpers init-system-helpers 1.68
install ok installed libacl1:amd64 libacl1 2.3.2-2+b1
install ok installed libaec0:amd64 libaec0 1.1.3-1+b1
install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 2.9.33
install ok installed libattr1:amd64 libattr1 1:2.5.2-3
install ok installed libaudit-common libaudit-common 1:4.0.2-2
install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2+b2
install ok installed libblas3:amd64 libblas3 3.12.1-2
install ok installed libblkid1:amd64 libblkid1 2.40.4-5
install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b7
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 2.41-6
install ok installed libc6:amd64 libc6 2.41-6
install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b1
install ok installed libcap2:amd64 libcap2 1:2.75-2
install ok installed libcom-err2:amd64 libcom-err2 1.47.2-1+b1
install ok installed libcrypt1:amd64 libcrypt1 1:4.4.38-1
install ok installed libcurl4t64:amd64 libcurl4t64 8.12.1-3
install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9
install ok installed libdebconfclient0:amd64 libdebconfclient0 0.277
install ok installed libexpat1:amd64 libexpat1 2.7.0-1
install ok installed libffi8:amd64 libffi8 3.4.7-1
install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-19
install ok installed libgfortran5:amd64 libgfortran5 14.2.0-19
install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3
install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.9-2
install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-5
install ok installed libhdf5-310:amd64 libhdf5-310 1.14.5+repack-3
install ok installed libhdf5-hl-310:amd64 libhdf5-hl-310 1.14.5+repack-3
install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.1-1
install ok installed libidn2-0:amd64 libidn2-0 2.3.8-2
install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-5
install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-4
install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-5
install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-5
install ok installed liblapack3:amd64 liblapack3 3.12.1-2
install ok installed libldap2:amd64 libldap2 2.6.9+dfsg-2
install ok installed liblz4-1:amd64 liblz4-1 1.10.0-4
install ok installed liblzf1:amd64 liblzf1 3.6-4+b3
install ok installed liblzma5:amd64 liblzma5 5.6.4-1
install ok installed libmd0:amd64 libmd0 1.1.0-2+b1
install ok installed libmount1:amd64 libmount1 2.40.4-5
install ok installed libncursesw6:amd64 libncursesw6 6.5+20250216-2
install ok installed libnettle8t64:amd64 libnettle8t64 3.10.1-1
install ok installed libnghttp2-14:amd64 libnghttp2-14 1.64.0-1
install ok installed libnghttp3-9:amd64 libnghttp3-9 1.8.0-1
install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-3
install ok installed libpam-modules:amd64 libpam-modules 1.7.0-3
install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-3
install ok installed libpam-runtime libpam-runtime 1.7.0-3
install ok installed libpam0g:amd64 libpam0g 1.7.0-3
install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.45-1
install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-7
install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1+b1
install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.13.2-2
install ok installed libpython3.13-minimal:amd64 libpython3.13-minimal 3.13.2-2
install ok installed libpython3.13-stdlib:amd64 libpython3.13-stdlib 3.13.2-2
install ok installed libreadline8t64:amd64 libreadline8t64 8.2-6
install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b5
install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-9
install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-9
install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2+b1
install ok installed libselinux1:amd64 libselinux1 3.8.1-1
install ok installed libsemanage-common libsemanage-common 3.8.1-1
install ok installed libsemanage2:amd64 libsemanage2 3.8.1-1
install ok installed libsepol2:amd64 libsepol2 3.8.1-1
install ok installed libsmartcols1:amd64 libsmartcols1 2.40.4-5
install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-2
install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-1
install ok installed libssl3t64:amd64 libssl3t64 3.4.1-1
install ok installed libstdc++6:amd64 libstdc++6 14.2.0-19
install ok installed libsystemd0:amd64 libsystemd0 257.4-3
install ok installed libsz2:amd64 libsz2 1.1.3-1+b1
install ok installed libtasn1-6:amd64 libtasn1-6 4.20.0-2
install ok installed libtext-charwidth-perl:amd64 libtext-charwidth-perl 0.04-11+b4
install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-10
install ok installed libtinfo6:amd64 libtinfo6 6.5+20250216-2
install ok installed libudev1:amd64 libudev1 257.4-3
install ok installed libunistring5:amd64 libunistring5 1.3-1
install ok installed libuuid1:amd64 libuuid1 2.40.4-5
install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2
install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-1
install ok installed login login 1:4.16.0-2+really2.40.4-5
install ok installed login.defs login.defs 1:4.17.3-2
install ok installed mawk mawk 1.3.4.20250131-1
install ok installed media-types media-types 13.0.0
install ok installed mount mount 2.40.4-5
install ok installed ncurses-base ncurses-base 6.5+20250216-2
install ok installed ncurses-bin ncurses-bin 6.5+20250216-2
install ok installed netbase netbase 6.5
install ok installed openssl-provider-legacy openssl-provider-legacy 3.4.1-1
install ok installed passwd passwd 1:4.17.3-2
install ok installed perl-base perl-base 5.40.1-2
install ok installed procps procps 2:4.0.4-7
install ok installed python3 python3 3.13.2-2
install ok installed python3-biom-format python3-biom-format 2.1.16-1+b5
install ok installed python3-click python3-click 8.2.0+0.really.8.1.8-1
install ok installed python3-dateutil python3-dateutil 2.9.0-3
install ok installed python3-decorator python3-decorator 5.1.1-5
install ok installed python3-h5py python3-h5py 3.13.0-1
install ok installed python3-h5py-serial python3-h5py-serial 3.13.0-1+b1
install ok installed python3-minimal python3-minimal 3.13.2-2
install ok installed python3-numpy python3-numpy 1:2.2.3+ds-5
install ok installed python3-numpy-dev:amd64 python3-numpy-dev 1:2.2.3+ds-5
install ok installed python3-pandas python3-pandas 2.2.3+dfsg-8
install ok installed python3-pandas-lib:amd64 python3-pandas-lib 2.2.3+dfsg-8+b1
install ok installed python3-pytz python3-pytz 2025.1-3
install ok installed python3-scipy python3-scipy 1.15.2-5
install ok installed python3-tz python3-tz 2025.1-3
install ok installed python3.13 python3.13 3.13.2-2
install ok installed python3.13-minimal python3.13-minimal 3.13.2-2
install ok installed readline-common readline-common 8.2-6
install ok installed sed sed 4.9-2
install ok installed sensible-utils sensible-utils 0.0.24
install ok installed sqv sqv 1.2.1-6+b1
install ok installed sysvinit-utils sysvinit-utils 3.14-4
install ok installed tar tar 1.35+dfsg-3.1
install ok installed tzdata tzdata 2025a-2
install ok installed ucf ucf 3.0050
install ok installed usr-is-merged usr-is-merged 39+nmu2
install ok installed util-linux util-linux 2.40.4-5
install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1
0m42.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m42.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'remove', '--allow-remove-essential', 'libaec0:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcom-err2:amd64', 'libcurl4t64:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libgfortran5:amd64', 'libgnutls30t64:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-310:amd64', 'libhdf5-hl-310:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap2:amd64', 'liblzf1:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libp11-kit0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring5:amd64', 'media-types', 'netbase', 'python3', 'python3-click', 'python3-dateutil', 'python3-decorator', 'python3-h5py', 'python3-h5py-serial', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pytz', 'python3-scipy', 'python3-tz', 'python3.13', 'python3.13-minimal', 'readline-common', 'python3-biom-format']
0m44.4s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
The following packages will be REMOVED:
libaec0 libblas3 libbrotli1 libcom-err2 libcurl4t64 libexpat1 libffi8
libgfortran5 libgnutls30t64 libgssapi-krb5-2 libhdf5-310 libhdf5-hl-310
libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3
libldap2 liblzf1 libnghttp2-14 libnghttp3-9 libp11-kit0 libpsl5t64
libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libreadline8t64
librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1t64 libsz2
libtasn1-6 libunistring5 media-types netbase python3 python3-biom-format
python3-click python3-dateutil python3-decorator python3-h5py
python3-h5py-serial python3-minimal python3-numpy python3-numpy-dev
python3-pandas python3-pandas-lib python3-pytz python3-scipy python3-tz
python3.13 python3.13-minimal readline-common
0 upgraded, 0 newly installed, 56 to remove and 0 not upgraded.
After this operation, 216 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 ... 11594 files and directories currently installed.)
Removing python3-biom-format (2.1.16-1+b5) ...
Removing python3-h5py (3.13.0-1) ...
Removing python3-h5py-serial (3.13.0-1+b1) ...
Removing libhdf5-hl-310:amd64 (1.14.5+repack-3) ...
Removing libhdf5-310:amd64 (1.14.5+repack-3) ...
Removing libsz2:amd64 (1.1.3-1+b1) ...
Removing libaec0:amd64 (1.1.3-1+b1) ...
Removing python3-scipy (1.15.2-5) ...
Removing python3-pandas (2.2.3+dfsg-8) ...
Removing python3-pandas-lib:amd64 (2.2.3+dfsg-8+b1) ...
Removing python3-numpy (1:2.2.3+ds-5) ...
Removing liblapack3:amd64 (3.12.1-2) ...
Removing libblas3:amd64 (3.12.1-2) ...
Removing libcurl4t64:amd64 (8.12.1-3) ...
Removing libbrotli1:amd64 (1.1.0-2+b7) ...
Removing libgssapi-krb5-2:amd64 (1.21.3-5) ...
Removing libkrb5-3:amd64 (1.21.3-5) ...
Removing libcom-err2:amd64 (1.47.2-1+b1) ...
Removing python3-tz (2025.1-3) ...
Removing python3-pytz (2025.1-3) ...
Removing python3-decorator (5.1.1-5) ...
Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Removing libgnutls30t64:amd64 (3.8.9-2) ...
Removing libp11-kit0:amd64 (0.25.5-3) ...
Removing libgfortran5:amd64 (14.2.0-19) ...
Removing libpsl5t64:amd64 (0.21.2-1.1+b1) ...
Removing libidn2-0:amd64 (2.3.8-2) ...
Removing libk5crypto3:amd64 (1.21.3-5) ...
Removing libkeyutils1:amd64 (1.6.3-4) ...
Removing libkrb5support0:amd64 (1.21.3-5) ...
Removing libldap2:amd64 (2.6.9+dfsg-2) ...
Removing liblzf1:amd64 (3.6-4+b3) ...
Removing libnghttp2-14:amd64 (1.64.0-1) ...
Removing libnghttp3-9:amd64 (1.8.0-1) ...
Removing libsasl2-2:amd64 (2.1.28+dfsg1-9) ...
Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ...
Removing libssh2-1t64:amd64 (1.11.1-1) ...
Removing libtasn1-6:amd64 (4.20.0-2) ...
Removing libunistring5:amd64 (1.3-1) ...
Removing python3-click (8.2.0+0.really.8.1.8-1) ...
Removing python3-dateutil (2.9.0-3) ...
Removing python3-numpy-dev:amd64 (1:2.2.3+ds-5) ...
Removing python3 (3.13.2-2) ...
Removing python3-minimal (3.13.2-2) ...
Removing python3.13 (3.13.2-2) ...
Removing python3.13-minimal (3.13.2-2) ...
Removing libexpat1:amd64 (2.7.0-1) ...
Removing libpython3-stdlib:amd64 (3.13.2-2) ...
Removing libpython3.13-stdlib:amd64 (3.13.2-2) ...
find: '/usr/lib/python3': No such file or directory
Removing libffi8:amd64 (3.4.7-1) ...
Removing libpython3.13-minimal:amd64 (3.13.2-2) ...
find: '/usr/lib/python3': No such file or directory
Removing libreadline8t64:amd64 (8.2-6) ...
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 libsqlite3-0:amd64 (3.46.1-2) ...
Removing media-types (13.0.0) ...
Removing netbase (6.5) ...
Removing readline-common (8.2-6) ...
Processing triggers for libc-bin (2.41-6) ...
0m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'remove', '--allow-remove-essential', 'libaec0:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcom-err2:amd64', 'libcurl4t64:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libgfortran5:amd64', 'libgnutls30t64:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-310:amd64', 'libhdf5-hl-310:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap2:amd64', 'liblzf1:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libp11-kit0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring5:amd64', 'media-types', 'netbase', 'python3', 'python3-click', 'python3-dateutil', 'python3-decorator', 'python3-h5py', 'python3-h5py-serial', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pytz', 'python3-scipy', 'python3-tz', 'python3.13', 'python3.13-minimal', 'readline-common', 'python3-biom-format']
0m44.4s INFO: Running scripts post_remove
0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_remove_cleanup']
0m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_remove_cleanup']
0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_remove_exceptions']
0m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_remove_exceptions']
0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', 'libaec0:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcom-err2:amd64', 'libcurl4t64:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libgfortran5:amd64', 'libgnutls30t64:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-310:amd64', 'libhdf5-hl-310:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap2:amd64', 'liblzf1:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libp11-kit0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring5:amd64', 'media-types', 'netbase', 'python3', 'python3-click', 'python3-dateutil', 'python3-decorator', 'python3-h5py', 'python3-h5py-serial', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pytz', 'python3-scipy', 'python3-tz', 'python3.13', 'python3.13-minimal', 'readline-common']
0m44.5s DUMP:
dpkg: warning: ignoring request to remove libaec0 which isn't installed
dpkg: warning: ignoring request to remove libblas3 which isn't installed
dpkg: warning: ignoring request to remove libbrotli1 which isn't installed
dpkg: warning: ignoring request to remove libcom-err2 which isn't installed
dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed
dpkg: warning: ignoring request to remove libexpat1 which isn't installed
dpkg: warning: ignoring request to remove libffi8 which isn't installed
dpkg: warning: ignoring request to remove libgfortran5 which isn't installed
dpkg: warning: ignoring request to remove libgnutls30t64 which isn't installed
(Reading database ... 5462 files and directories currently installed.)
Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-5) ...
dpkg: warning: ignoring request to remove libhdf5-310 which isn't installed
dpkg: warning: ignoring request to remove libhdf5-hl-310 which isn't installed
dpkg: warning: ignoring request to remove libidn2-0 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 libldap2 which isn't installed
dpkg: warning: ignoring request to remove liblzf1 which isn't installed
dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed
dpkg: warning: ignoring request to remove libnghttp3-9 which isn't installed
dpkg: warning: ignoring request to remove libp11-kit0 which isn't installed
dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed
dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed
Purging configuration files for libpython3.13-minimal:amd64 (3.13.2-2) ...
dpkg: warning: ignoring request to remove libpython3.13-stdlib which isn't installed
Purging configuration files for libreadline8t64:amd64 (8.2-6) ...
dpkg: warning: ignoring request to remove librtmp1 which isn't installed
dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed
dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed
dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed
dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed
dpkg: warning: ignoring request to remove libsz2 which isn't installed
dpkg: warning: ignoring request to remove libtasn1-6 which isn't installed
dpkg: warning: ignoring request to remove libunistring5 which isn't installed
Purging configuration files for media-types (13.0.0) ...
Purging configuration files for netbase (6.5) ...
Purging configuration files for python3 (3.13.2-2) ...
dpkg: warning: ignoring request to remove python3-click which isn't installed
dpkg: warning: ignoring request to remove python3-dateutil which isn't installed
dpkg: warning: ignoring request to remove python3-decorator which isn't installed
dpkg: warning: ignoring request to remove python3-h5py which isn't installed
dpkg: warning: ignoring request to remove python3-h5py-serial which isn't installed
dpkg: warning: ignoring request to remove python3-minimal which isn't installed
Purging configuration files for python3-numpy (1:2.2.3+ds-5) ...
dpkg: warning: ignoring request to remove python3-numpy-dev 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-pytz which isn't installed
dpkg: warning: ignoring request to remove python3-scipy which isn't installed
dpkg: warning: ignoring request to remove python3-tz which isn't installed
dpkg: warning: ignoring request to remove python3.13 which isn't installed
Purging configuration files for python3.13-minimal (3.13.2-2) ...
Purging configuration files for readline-common (8.2-6) ...
0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', 'libaec0:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcom-err2:amd64', 'libcurl4t64:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libgfortran5:amd64', 'libgnutls30t64:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-310:amd64', 'libhdf5-hl-310:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap2:amd64', 'liblzf1:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libp11-kit0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring5:amd64', 'media-types', 'netbase', 'python3', 'python3-click', 'python3-dateutil', 'python3-decorator', 'python3-h5py', 'python3-h5py-serial', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pytz', 'python3-scipy', 'python3-tz', 'python3.13', 'python3.13-minimal', 'readline-common']
0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', 'python3-biom-format']
0m44.5s DUMP:
dpkg: warning: ignoring request to remove python3-biom-format which isn't installed
0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', 'python3-biom-format']
0m44.5s INFO: Running scripts post_purge
0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_purge_exceptions']
0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_purge_exceptions']
0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_purge_manual_cleanup']
0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_purge_manual_cleanup']
0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', '--pending']
0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--purge', '--pending']
0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--remove', '--pending']
0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg', '--remove', '--pending']
0m44.5s INFO: Running scripts post_test
0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_test_exceptions']
0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'tmp/scripts/post_test_exceptions']
0m44.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m44.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m45.3s DEBUG: No broken symlinks as far as we can find.
0m45.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-divert', '--list']
0m45.3s DUMP:
local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged
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 /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
0m45.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'dpkg-divert', '--list']
0m45.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'clean']
0m45.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv', 'apt-get', 'clean']
0m45.3s DEBUG: Recording chroot state
0m46.6s INFO: PASS: Installation and purging test.
0m47.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/shm']
0m47.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/shm']
0m47.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/console']
0m47.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/console']
0m47.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/ptmx']
0m47.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/ptmx']
0m47.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/pts']
0m47.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/dev/pts']
0m47.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/proc']
0m47.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv/proc']
0m47.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m47.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp6bzo0svv']
0m47.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp6bzo0svv
0m47.2s INFO: PASS: All tests.
0m47.2s INFO: piuparts run ends.
ret=0
End: 2025-03-17 06:39:06 GMT