Start: 2025-08-11 00:16:02 GMT [trixie] Package: libgkl-java Source: gkl Version: 0.8.11+dfsg-2 Installed-Size: 52 Maintainer: Debian Java Maintainers Architecture: all Depends: libcommons-io-java, libgatk-native-bindings-java, libhtsjdk-java, liblog4j2-java Recommends: libgkl-jni Description: Java library to manipulate SAM and BAM files Multi-Arch: foreign Homepage: https://github.com/Intel-HLS/GKL Description-md5: 3d7e7e85b403761a78a34515014cfb3f Section: java Priority: optional Filename: pool/main/g/gkl/libgkl-java_0.8.11+dfsg-2_all.deb Size: 24696 MD5sum: 712b7fceac1f728c507662b430a415d0 SHA256: 4b5f3ff7b74b608933b056586cfb063a2463df9e6931e3e757fed1bc414e9b67 [trixie-next] Package: libgkl-java Source: gkl Version: 0.8.11+dfsg-2 Installed-Size: 52 Maintainer: Debian Java Maintainers Architecture: all Depends: libcommons-io-java, libgatk-native-bindings-java, libhtsjdk-java, liblog4j2-java Recommends: libgkl-jni Description: Java library to manipulate SAM and BAM files Multi-Arch: foreign Homepage: https://github.com/Intel-HLS/GKL Description-md5: 3d7e7e85b403761a78a34515014cfb3f Section: java Priority: optional Filename: pool/main/g/gkl/libgkl-java_0.8.11+dfsg-2_all.deb Size: 24696 MD5sum: 712b7fceac1f728c507662b430a415d0 SHA256: 4b5f3ff7b74b608933b056586cfb063a2463df9e6931e3e757fed1bc414e9b67 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/trixie-merged-usr_amd64.tar.gz -d trixie -d trixie-next -B /srv/piuparts.debian.org/slave/refchroot/trixie2next/reference-chroot-metadata.dat --apt libgkl-java=0.8.11+dfsg-2 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.6.1~202508101417~1.6.0-7-g17c4ea32 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/trixie-merged-usr_amd64.tar.gz -d trixie -d trixie-next -B /srv/piuparts.debian.org/slave/refchroot/trixie2next/reference-chroot-metadata.dat --apt libgkl-java=0.8.11+dfsg-2 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 6.1.0-37-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.140-1 (2025-05-22) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpjlasuiq_ 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpjlasuiq_ 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.2s DEBUG: Created policy-rc.d and chmodded it. 0m0.2s DEBUG: Created resolv.conf. 0m0.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpjlasuiq_/tmp/scripts/ 0m0.2s INFO: Running scripts post_chroot_unpack 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'update'] 0m1.4s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [138 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9668 kB] Fetched 9805 kB in 1s (13.8 MB/s) Reading package lists... 0m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'update'] 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-yf', 'dist-upgrade'] 0m1.6s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-yf', 'dist-upgrade'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.8s DUMP: 8fc0def95551deb38dc214d6c9cce720 - 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.8s INFO: Running scripts post_setup 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_dummy_users'] 0m2.3s 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 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_dummy_users'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_forbid_home'] 0m2.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_forbid_home'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.3s 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' 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_minimize'] 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_minimize'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_zz_backports'] 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_setup_zz_backports'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.3s DUMP: install ok installed apt apt 3.0.3 install ok installed base-files base-files 13.8 install ok installed base-passwd base-passwd 3.6.7 install ok installed bash bash 5.2.37-2+b5 install ok installed bsdutils bsdutils 1:2.41-5 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 1:3.10-4 install ok installed dpkg dpkg 1.22.21 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 3.0.3 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 2.41-5 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 2.41-12 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+b1 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 0.280 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 liblastlog2-2:amd64 liblastlog2-2 2.41-5 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-4 install ok installed liblzma5:amd64 liblzma5 5.8.1-1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.41-5 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.1-1 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 10.45-1 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2 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 2.41-5 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-7 install ok installed libssl3t64:amd64 libssl3t64 3.5.1-1 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-19 install ok installed libsystemd0:amd64 libsystemd0 257.7-1 install ok installed libtinfo6:amd64 libtinfo6 6.5+20250216-2 install ok installed libudev1:amd64 libudev1 257.7-1 install ok installed libuuid1:amd64 libuuid1 2.41-5 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+really2.41-5 install ok installed login.defs login.defs 1:4.17.4-2 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed mount mount 2.41-5 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 3.5.1-1 install ok installed passwd passwd 1:4.17.4-2 install ok installed perl-base perl-base 5.40.1-6 install ok installed sed sed 4.9-2 install ok installed sqv sqv 1.3.0-3 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 2025b-4 install ok installed util-linux util-linux 2.41-5 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.3s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/trixie2next/reference-chroot-metadata.dat 0m2.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m2.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m2.5s INFO: Running scripts is_testable 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/is_testable_uninstallable'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/is_testable_uninstallable'] 0m2.5s INFO: Running scripts pre_test 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_test_exceptions'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_test_exceptions'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_test_root_password'] 0m2.5s DUMP: New password: Retype new password: passwd: password updated successfully 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_test_root_password'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'show', '--no-all-versions', 'libgkl-java'] 0m2.7s DUMP: Package: libgkl-java Source: gkl Version: 0.8.11+dfsg-2 Installed-Size: 52 Maintainer: Debian Java Maintainers Architecture: all Depends: libcommons-io-java, libgatk-native-bindings-java, libhtsjdk-java, liblog4j2-java Recommends: libgkl-jni Description-en: Java library to manipulate SAM and BAM files Java library with optimized versions of compute kernels used in genomics applications like GATK and HTSJDK. These kernels are optimized to run on Intel Architecture (AVX, AVX2, AVX-512, multicore, and FPGA) under 64-bit Linux. Description-md5: 3d7e7e85b403761a78a34515014cfb3f Multi-Arch: foreign Homepage: https://github.com/Intel-HLS/GKL Section: java Priority: optional Filename: pool/main/g/gkl/libgkl-java_0.8.11+dfsg-2_all.deb Size: 24696 MD5sum: 712b7fceac1f728c507662b430a415d0 SHA256: 4b5f3ff7b74b608933b056586cfb063a2463df9e6931e3e757fed1bc414e9b67 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'show', '--no-all-versions', 'libgkl-java'] 0m2.7s INFO: apt-cache knows about the following packages: libgkl-java 0m2.7s INFO: Running scripts pre_install 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_database-server'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_database-server'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_exceptions'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_exceptions'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_extras'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_extras'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy'] 0m2.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release v=13.0,o=Debian,a=stable,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy', 'libgkl-java'] 0m2.7s DUMP: libgkl-java: Installed: (none) Candidate: 0.8.11+dfsg-2 Version table: 0.8.11+dfsg-2 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy', 'libgkl-java'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-y', 'install', 'libgkl-java'] 0m7.8s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates ca-certificates-java default-jre-headless java-common junit4 libapache-pom-java libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-parent-java libezmorph-java libgatk-native-bindings-java libgoogle-gson-java libhamcrest-java libhtsjdk-java libhttpclient-java libhttpcore-java libjaxen-java libjpeg62-turbo libjson-java liblcms2-2 liblightcouch-java liblog4j2-java libmbedcrypto16 libmbedtls21 libmbedx509-7 libmongodb-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni libnspr4 libnss3 libpcsclite1 librhino-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libxerces2-java libxml-commons-external-java libxml-commons-resolver1.1-java libxom-java ncbi-vdb-data openjdk-21-jre-headless openssl Suggested packages: default-jre libcommons-collections3-java-doc libcommons-collections4-java-doc libasm-java libxz-java libavalon-framework-java libexcalibur-logkit-java liblog4j1.2-java libgoogle-gson-java-doc picard-tools python3 libdom4j-java libjdom1-java liblcms2-utils libactivation-java libcommons-csv-java libconversant-disruptor-java libdisruptor-java libgeronimo-jms-1.1-spec-java libjackson2-dataformat-xml-java libjackson2-dataformat-yaml libjansi-java libjctools-java libjeromq-java libmail-java libwoodstox-java libngs-java-doc pcscd rhino libxerces2-java-doc libxml-commons-resolver1.1-java-doc libxom-java-doc libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic Recommended packages: libgkl-jni python3:any libcups2t64 libfontconfig1 libfreetype6 libharfbuzz0b libasound2t64 The following NEW packages will be installed: ca-certificates ca-certificates-java default-jre-headless java-common junit4 libapache-pom-java libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-parent-java libezmorph-java libgatk-native-bindings-java libgkl-java libgoogle-gson-java libhamcrest-java libhtsjdk-java libhttpclient-java libhttpcore-java libjaxen-java libjpeg62-turbo libjson-java liblcms2-2 liblightcouch-java liblog4j2-java libmbedcrypto16 libmbedtls21 libmbedx509-7 libmongodb-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni libnspr4 libnss3 libpcsclite1 librhino-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libxerces2-java libxml-commons-external-java libxml-commons-resolver1.1-java libxom-java ncbi-vdb-data openjdk-21-jre-headless openssl 0 upgraded, 53 newly installed, 0 to remove and 0 not upgraded. Need to get 64.4 MB of archives. After this operation, 242 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.5.1-1 [1494 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20250419 [162 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 java-common all 0.76 [6776 B] Get:5 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libnspr4 amd64 2:4.36-1 [110 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libnss3 amd64 2:3.110-1 [1393 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libpcsclite1 amd64 2.3.3-1 [55.2 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre-headless amd64 21.0.8+9-1 [41.8 MB] Get:11 http://deb.debian.org/debian trixie/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get:12 http://deb.debian.org/debian trixie/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 junit4 all 4.13.2-5 [350 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libapache-pom-java all 33-2 [5852 B] Get:15 http://deb.debian.org/debian trixie/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libcommons-beanutils-java all 1.10.1-1.1 [231 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libcommons-codec-java all 1.18.0-1 [304 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libcommons-collections4-java all 4.4-2 [682 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libcommons-io-java all 2.19.0-1 [524 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 libcommons-lang3-java all 3.17.0-1 [641 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 libezmorph-java all 1.0.6-4 [75.9 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libgatk-native-bindings-java all 1.0.0+dfsg-2 [8024 B] Get:27 http://deb.debian.org/debian trixie/main amd64 libslf4j-java all 1.7.32-2 [142 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libjaxen-java all 1.1.6-5 [214 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libxom-java all 1.3.9-1 [174 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libjson-java all 3.1.0+dfsg-2 [142 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libmbedcrypto16 amd64 3.6.4-2 [360 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libmbedx509-7 amd64 3.6.4-2 [151 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libmbedtls21 amd64 3.6.4-2 [242 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 ncbi-vdb-data all 3.2.1+dfsg-2 [88.5 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libncbi-vdb3 amd64 3.2.1+dfsg-2 [1164 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libncbi-ngs3 amd64 3.2.1+dfsg-4 [159 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libngs-jni amd64 3.2.1+dfsg-4 [27.7 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libngs-java amd64 3.2.1+dfsg-4 [114 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 librhino-java all 1.7.15-1 [1382 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.2-1 [29.3 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libsnappy-jni amd64 1.1.10.7-1 [6492 B] Get:45 http://deb.debian.org/debian trixie/main amd64 libsnappy-java all 1.1.10.7-1 [87.6 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libhtsjdk-java all 4.1.3+dfsg-2 [1841 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libmongodb-java all 3.6.3-2 [1901 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 liblog4j2-java all 2.19.0-2 [2310 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 libgkl-java all 0.8.11+dfsg-2 [24.7 kB] Preconfiguring packages ... Fetched 64.4 MB in 1s (76.4 MB/s) Selecting previously unselected package openssl. (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 ... 4938 files and directories currently installed.) Preparing to unpack .../00-openssl_3.5.1-1_amd64.deb ... Unpacking openssl (3.5.1-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../01-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../02-ca-certificates-java_20240118_all.deb ... Unpacking ca-certificates-java (20240118) ... Selecting previously unselected package java-common. Preparing to unpack .../03-java-common_0.76_all.deb ... Unpacking java-common (0.76) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../04-liblcms2-2_2.16-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.16-2) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../05-libjpeg62-turbo_1%3a2.1.5-4_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-4) ... Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../06-libnspr4_2%3a4.36-1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.36-1) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../07-libnss3_2%3a3.110-1_amd64.deb ... Unpacking libnss3:amd64 (2:3.110-1) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../08-libpcsclite1_2.3.3-1_amd64.deb ... Unpacking libpcsclite1:amd64 (2.3.3-1) ... Selecting previously unselected package openjdk-21-jre-headless:amd64. Preparing to unpack .../09-openjdk-21-jre-headless_21.0.8+9-1_amd64.deb ... Unpacking openjdk-21-jre-headless:amd64 (21.0.8+9-1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../10-default-jre-headless_2%3a1.21-76_amd64.deb ... Unpacking default-jre-headless (2:1.21-76) ... Selecting previously unselected package libhamcrest-java. Preparing to unpack .../11-libhamcrest-java_2.2-2_all.deb ... Unpacking libhamcrest-java (2.2-2) ... Selecting previously unselected package junit4. Preparing to unpack .../12-junit4_4.13.2-5_all.deb ... Unpacking junit4 (4.13.2-5) ... Selecting previously unselected package libapache-pom-java. Preparing to unpack .../13-libapache-pom-java_33-2_all.deb ... Unpacking libapache-pom-java (33-2) ... Selecting previously unselected package libcommons-collections3-java. Preparing to unpack .../14-libcommons-collections3-java_3.2.2-3_all.deb ... Unpacking libcommons-collections3-java (3.2.2-3) ... Selecting previously unselected package libcommons-parent-java. Preparing to unpack .../15-libcommons-parent-java_56-1_all.deb ... Unpacking libcommons-parent-java (56-1) ... Selecting previously unselected package libcommons-logging-java. Preparing to unpack .../16-libcommons-logging-java_1.3.0-2_all.deb ... Unpacking libcommons-logging-java (1.3.0-2) ... Selecting previously unselected package libcommons-beanutils-java. Preparing to unpack .../17-libcommons-beanutils-java_1.10.1-1.1_all.deb ... Unpacking libcommons-beanutils-java (1.10.1-1.1) ... Selecting previously unselected package libcommons-codec-java. Preparing to unpack .../18-libcommons-codec-java_1.18.0-1_all.deb ... Unpacking libcommons-codec-java (1.18.0-1) ... Selecting previously unselected package libcommons-collections4-java. Preparing to unpack .../19-libcommons-collections4-java_4.4-2_all.deb ... Unpacking libcommons-collections4-java (4.4-2) ... Selecting previously unselected package libcommons-io-java. Preparing to unpack .../20-libcommons-io-java_2.19.0-1_all.deb ... Unpacking libcommons-io-java (2.19.0-1) ... Selecting previously unselected package libcommons-compress-java. Preparing to unpack .../21-libcommons-compress-java_1.27.1-2_all.deb ... Unpacking libcommons-compress-java (1.27.1-2) ... Selecting previously unselected package libcommons-jexl2-java. Preparing to unpack .../22-libcommons-jexl2-java_2.1.1-6_all.deb ... Unpacking libcommons-jexl2-java (2.1.1-6) ... Selecting previously unselected package libcommons-lang3-java. Preparing to unpack .../23-libcommons-lang3-java_3.17.0-1_all.deb ... Unpacking libcommons-lang3-java (3.17.0-1) ... Selecting previously unselected package libezmorph-java. Preparing to unpack .../24-libezmorph-java_1.0.6-4_all.deb ... Unpacking libezmorph-java (1.0.6-4) ... Selecting previously unselected package libgatk-native-bindings-java. Preparing to unpack .../25-libgatk-native-bindings-java_1.0.0+dfsg-2_all.deb ... Unpacking libgatk-native-bindings-java (1.0.0+dfsg-2) ... Selecting previously unselected package libslf4j-java. Preparing to unpack .../26-libslf4j-java_1.7.32-2_all.deb ... Unpacking libslf4j-java (1.7.32-2) ... Selecting previously unselected package libjaxen-java. Preparing to unpack .../27-libjaxen-java_1.1.6-5_all.deb ... Unpacking libjaxen-java (1.1.6-5) ... Selecting previously unselected package libxml-commons-external-java. Preparing to unpack .../28-libxml-commons-external-java_1.4.01-6_all.deb ... Unpacking libxml-commons-external-java (1.4.01-6) ... Selecting previously unselected package libxml-commons-resolver1.1-java. Preparing to unpack .../29-libxml-commons-resolver1.1-java_1.2-11_all.deb ... Unpacking libxml-commons-resolver1.1-java (1.2-11) ... Selecting previously unselected package libxerces2-java. Preparing to unpack .../30-libxerces2-java_2.12.2-1_all.deb ... Unpacking libxerces2-java (2.12.2-1) ... Selecting previously unselected package libxom-java. Preparing to unpack .../31-libxom-java_1.3.9-1_all.deb ... Unpacking libxom-java (1.3.9-1) ... Selecting previously unselected package libjson-java. Preparing to unpack .../32-libjson-java_3.1.0+dfsg-2_all.deb ... Unpacking libjson-java (3.1.0+dfsg-2) ... Selecting previously unselected package libmbedcrypto16:amd64. Preparing to unpack .../33-libmbedcrypto16_3.6.4-2_amd64.deb ... Unpacking libmbedcrypto16:amd64 (3.6.4-2) ... Selecting previously unselected package libmbedx509-7:amd64. Preparing to unpack .../34-libmbedx509-7_3.6.4-2_amd64.deb ... Unpacking libmbedx509-7:amd64 (3.6.4-2) ... Selecting previously unselected package libmbedtls21:amd64. Preparing to unpack .../35-libmbedtls21_3.6.4-2_amd64.deb ... Unpacking libmbedtls21:amd64 (3.6.4-2) ... Selecting previously unselected package ncbi-vdb-data. Preparing to unpack .../36-ncbi-vdb-data_3.2.1+dfsg-2_all.deb ... Unpacking ncbi-vdb-data (3.2.1+dfsg-2) ... Selecting previously unselected package libncbi-vdb3:amd64. Preparing to unpack .../37-libncbi-vdb3_3.2.1+dfsg-2_amd64.deb ... Unpacking libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Selecting previously unselected package libncbi-ngs3:amd64. Preparing to unpack .../38-libncbi-ngs3_3.2.1+dfsg-4_amd64.deb ... Unpacking libncbi-ngs3:amd64 (3.2.1+dfsg-4) ... Selecting previously unselected package libngs-jni:amd64. Preparing to unpack .../39-libngs-jni_3.2.1+dfsg-4_amd64.deb ... Unpacking libngs-jni:amd64 (3.2.1+dfsg-4) ... Selecting previously unselected package libngs-java:amd64. Preparing to unpack .../40-libngs-java_3.2.1+dfsg-4_amd64.deb ... Unpacking libngs-java:amd64 (3.2.1+dfsg-4) ... Selecting previously unselected package librhino-java. Preparing to unpack .../41-librhino-java_1.7.15-1_all.deb ... Unpacking librhino-java (1.7.15-1) ... Selecting previously unselected package libsnappy1v5:amd64. Preparing to unpack .../42-libsnappy1v5_1.2.2-1_amd64.deb ... Unpacking libsnappy1v5:amd64 (1.2.2-1) ... Selecting previously unselected package libsnappy-jni. Preparing to unpack .../43-libsnappy-jni_1.1.10.7-1_amd64.deb ... Unpacking libsnappy-jni (1.1.10.7-1) ... Selecting previously unselected package libsnappy-java. Preparing to unpack .../44-libsnappy-java_1.1.10.7-1_all.deb ... Unpacking libsnappy-java (1.1.10.7-1) ... Selecting previously unselected package libhtsjdk-java. Preparing to unpack .../45-libhtsjdk-java_4.1.3+dfsg-2_all.deb ... Unpacking libhtsjdk-java (4.1.3+dfsg-2) ... Selecting previously unselected package libgoogle-gson-java. Preparing to unpack .../46-libgoogle-gson-java_2.10.1-1_all.deb ... Unpacking libgoogle-gson-java (2.10.1-1) ... Selecting previously unselected package libhttpcore-java. Preparing to unpack .../47-libhttpcore-java_4.4.16-1_all.deb ... Unpacking libhttpcore-java (4.4.16-1) ... Selecting previously unselected package libhttpclient-java. Preparing to unpack .../48-libhttpclient-java_4.5.14-1_all.deb ... Unpacking libhttpclient-java (4.5.14-1) ... Selecting previously unselected package liblightcouch-java. Preparing to unpack .../49-liblightcouch-java_0.2.0-1_all.deb ... Unpacking liblightcouch-java (0.2.0-1) ... Selecting previously unselected package libmongodb-java. Preparing to unpack .../50-libmongodb-java_3.6.3-2_all.deb ... Unpacking libmongodb-java (3.6.3-2) ... Selecting previously unselected package liblog4j2-java. Preparing to unpack .../51-liblog4j2-java_2.19.0-2_all.deb ... Unpacking liblog4j2-java (2.19.0-2) ... Selecting previously unselected package libgkl-java. Preparing to unpack .../52-libgkl-java_0.8.11+dfsg-2_all.deb ... Unpacking libgkl-java (0.8.11+dfsg-2) ... Setting up liblcms2-2:amd64 (2.16-2) ... Setting up libslf4j-java (1.7.32-2) ... Setting up libgatk-native-bindings-java (1.0.0+dfsg-2) ... Setting up java-common (0.76) ... Setting up libgoogle-gson-java (2.10.1-1) ... Setting up libsnappy1v5:amd64 (1.2.2-1) ... Setting up libcommons-collections3-java (3.2.2-3) ... Setting up librhino-java (1.7.15-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-4) ... Setting up libjaxen-java (1.1.6-5) ... Setting up libnspr4:amd64 (2:4.36-1) ... Setting up libapache-pom-java (33-2) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libpcsclite1:amd64 (2.3.3-1) ... Setting up libmongodb-java (3.6.3-2) ... Setting up libhamcrest-java (2.2-2) ... Setting up libxml-commons-external-java (1.4.01-6) ... Setting up ncbi-vdb-data (3.2.1+dfsg-2) ... Setting up libmbedcrypto16:amd64 (3.6.4-2) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libxerces2-java (2.12.2-1) ... Setting up openssl (3.5.1-1) ... Setting up libsnappy-jni (1.1.10.7-1) ... Setting up libezmorph-java (1.0.6-4) ... Setting up libcommons-parent-java (56-1) ... Setting up libcommons-logging-java (1.3.0-2) ... Setting up libnss3:amd64 (2:3.110-1) ... Setting up libxom-java (1.3.9-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libmbedx509-7:amd64 (3.6.4-2) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libcommons-lang3-java (3.17.0-1) ... Setting up libmbedtls21:amd64 (3.6.4-2) ... Setting up libcommons-beanutils-java (1.10.1-1.1) ... Setting up libsnappy-java (1.1.10.7-1) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libcommons-codec-java (1.18.0-1) ... Setting up openjdk-21-jre-headless:amd64 (21.0.8+9-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libcommons-io-java (2.19.0-1) ... Setting up libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libncbi-ngs3:amd64 (3.2.1+dfsg-4) ... Setting up libngs-jni:amd64 (3.2.1+dfsg-4) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up libngs-java:amd64 (3.2.1+dfsg-4) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_BR_Root_CA_2_2023.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_2_2023.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_Root_CA12.pem Adding debian:SecureSign_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_CYBER_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up junit4 (4.13.2-5) ... Setting up default-jre-headless (2:1.21-76) ... Setting up libjson-java (3.1.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.3+dfsg-2) ... Setting up libgkl-java (0.8.11+dfsg-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. Processing triggers for ca-certificates-java (20240118) ... done. 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-y', 'install', 'libgkl-java'] 0m7.8s INFO: Running scripts post_install 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_install_exceptions'] 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_install_exceptions'] 0m7.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m8.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m8.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpjlasuiq_ to trixie-next 0m8.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main deb http://security.debian.org trixie-security main deb http://deb.debian.org/debian/ trixie-updates main deb http://deb.debian.org/debian/ trixie-proposed-updates main 0m8.0s INFO: Running scripts pre_distupgrade 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_exceptions'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_exceptions'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'update'] 0m8.6s DUMP: Get:1 http://security.debian.org trixie-security InRelease [43.4 kB] Hit:2 http://deb.debian.org/debian trixie InRelease Get:3 http://deb.debian.org/debian trixie-updates InRelease [47.1 kB] Get:4 http://security.debian.org trixie-security/main amd64 Packages [5304 B] Get:5 http://deb.debian.org/debian trixie-proposed-updates InRelease [55.8 kB] Get:6 http://security.debian.org trixie-security/main Translation-en [6724 B] Get:7 http://deb.debian.org/debian trixie-updates/main amd64 Packages [2432 B] Get:8 http://deb.debian.org/debian trixie-updates/main Translation-en [396 B] Get:9 http://deb.debian.org/debian trixie-proposed-updates/main amd64 Packages [7300 B] Get:10 http://deb.debian.org/debian trixie-proposed-updates/main Translation-en [3288 B] Fetched 172 kB in 0s (1053 kB/s) Reading package lists... 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'update'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-yf', 'dist-upgrade'] 0m8.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-yf', 'dist-upgrade'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.1s DUMP: 5c6a884f0339ba51c78a9d3f50b19f1b - 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'show', '--no-all-versions', 'libgkl-java'] 0m9.2s DUMP: Package: libgkl-java Source: gkl Version: 0.8.11+dfsg-2 Installed-Size: 52 Maintainer: Debian Java Maintainers Architecture: all Depends: libcommons-io-java, libgatk-native-bindings-java, libhtsjdk-java, liblog4j2-java Recommends: libgkl-jni Description-en: Java library to manipulate SAM and BAM files Java library with optimized versions of compute kernels used in genomics applications like GATK and HTSJDK. These kernels are optimized to run on Intel Architecture (AVX, AVX2, AVX-512, multicore, and FPGA) under 64-bit Linux. Description-md5: 3d7e7e85b403761a78a34515014cfb3f Multi-Arch: foreign Homepage: https://github.com/Intel-HLS/GKL Section: java Priority: optional Filename: pool/main/g/gkl/libgkl-java_0.8.11+dfsg-2_all.deb Size: 24696 MD5sum: 712b7fceac1f728c507662b430a415d0 SHA256: 4b5f3ff7b74b608933b056586cfb063a2463df9e6931e3e757fed1bc414e9b67 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'show', '--no-all-versions', 'libgkl-java'] 0m9.2s INFO: apt-cache knows about the following packages: libgkl-java 0m9.2s INFO: Running scripts pre_install 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_database-server'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_database-server'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_exceptions'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_exceptions'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_extras'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_extras'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy'] 0m9.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie-proposed-updates/main amd64 Packages release v=13-updates,o=Debian,a=proposed-updates,n=trixie-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian trixie-updates/main amd64 Packages release v=13-updates,o=Debian,a=stable-updates,n=trixie-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org trixie-security/main amd64 Packages release v=13,o=Debian,a=stable-security,n=trixie-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian trixie/main amd64 Packages release v=13.0,o=Debian,a=stable,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy', 'libgkl-java'] 0m9.3s DUMP: libgkl-java: Installed: 0.8.11+dfsg-2 Candidate: 0.8.11+dfsg-2 Version table: *** 0.8.11+dfsg-2 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 100 /var/lib/dpkg/status 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy', 'libgkl-java'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-y', 'install', 'libgkl-java'] 0m9.5s DUMP: Reading package lists... Building dependency tree... Reading state information... libgkl-java is already the newest version (0.8.11+dfsg-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-y', 'install', 'libgkl-java'] 0m9.5s INFO: Running scripts post_install 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_install_exceptions'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_install_exceptions'] 0m9.5s INFO: Running scripts post_distupgrade 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_exceptions'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_exceptions'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_zz_backports'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_distupgrade_zz_backports'] 0m9.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m9.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m9.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m10.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m10.0s INFO: Running scripts pre_install 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_database-server'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_database-server'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_exceptions'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_exceptions'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_extras'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_extras'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy'] 0m10.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie-proposed-updates/main amd64 Packages release v=13-updates,o=Debian,a=proposed-updates,n=trixie-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian trixie-updates/main amd64 Packages release v=13-updates,o=Debian,a=stable-updates,n=trixie-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org trixie-security/main amd64 Packages release v=13,o=Debian,a=stable-security,n=trixie-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian trixie/main amd64 Packages release v=13.0,o=Debian,a=stable,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy', 'libgkl-java'] 0m10.1s DUMP: libgkl-java: Installed: 0.8.11+dfsg-2 Candidate: 0.8.11+dfsg-2 Version table: *** 0.8.11+dfsg-2 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 100 /var/lib/dpkg/status 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-cache', 'policy', 'libgkl-java'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-y', 'install', 'libgkl-java=0.8.11+dfsg-2'] 0m10.3s DUMP: Reading package lists... Building dependency tree... Reading state information... libgkl-java is already the newest version (0.8.11+dfsg-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', '-y', 'install', 'libgkl-java=0.8.11+dfsg-2'] 0m10.3s INFO: Running scripts post_install 0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_install_exceptions'] 0m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_install_exceptions'] 0m10.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m10.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m10.8s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', '-ac', '--ignore-obsolete'] 0m11.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', '-ac', '--ignore-obsolete'] 0m11.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m11.5s DUMP: 0.15.9~deb12u1 0m11.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m11.5s INFO: Running adequate version 0.15.9~deb12u1 now. 0m11.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'libgkl-java'] 0m11.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'libgkl-java'] 0m11.6s INFO: Running scripts pre_remove 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_exceptions'] 0m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/pre_remove_exceptions'] 0m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m12.0s DUMP: install ok installed apt apt 3.0.3 install ok installed base-files base-files 13.8 install ok installed base-passwd base-passwd 3.6.7 install ok installed bash bash 5.2.37-2+b5 install ok installed bsdutils bsdutils 1:2.41-5 install ok installed ca-certificates ca-certificates 20250419 install ok installed ca-certificates-java ca-certificates-java 20240118 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 default-jre-headless default-jre-headless 2:1.21-76 install ok installed diffutils diffutils 1:3.10-4 install ok installed dpkg dpkg 1.22.21 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 java-common java-common 0.76 install ok installed junit4 junit4 4.13.2-5 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapache-pom-java libapache-pom-java 33-2 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.0.3 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 2.41-5 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 2.41-12 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+b1 install ok installed libcommons-beanutils-java libcommons-beanutils-java 1.10.1-1.1 install ok installed libcommons-codec-java libcommons-codec-java 1.18.0-1 install ok installed libcommons-collections3-java libcommons-collections3-java 3.2.2-3 install ok installed libcommons-collections4-java libcommons-collections4-java 4.4-2 install ok installed libcommons-compress-java libcommons-compress-java 1.27.1-2 install ok installed libcommons-io-java libcommons-io-java 2.19.0-1 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang3-java libcommons-lang3-java 3.17.0-1 install ok installed libcommons-logging-java libcommons-logging-java 1.3.0-2 install ok installed libcommons-parent-java libcommons-parent-java 56-1 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 0.280 install ok installed libezmorph-java libezmorph-java 1.0.6-4 install ok installed libgatk-native-bindings-java libgatk-native-bindings-java 1.0.0+dfsg-2 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-19 install ok installed libgkl-java libgkl-java 0.8.11+dfsg-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgoogle-gson-java libgoogle-gson-java 2.10.1-1 install ok installed libhamcrest-java libhamcrest-java 2.2-2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.1-1 install ok installed libhtsjdk-java libhtsjdk-java 4.1.3+dfsg-2 install ok installed libhttpclient-java libhttpclient-java 4.5.14-1 install ok installed libhttpcore-java libhttpcore-java 4.4.16-1 install ok installed libjaxen-java libjaxen-java 1.1.6-5 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-4 install ok installed libjson-java libjson-java 3.1.0+dfsg-2 install ok installed liblastlog2-2:amd64 liblastlog2-2 2.41-5 install ok installed liblcms2-2:amd64 liblcms2-2 2.16-2 install ok installed liblightcouch-java liblightcouch-java 0.2.0-1 install ok installed liblog4j2-java liblog4j2-java 2.19.0-2 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-4 install ok installed liblzma5:amd64 liblzma5 5.8.1-1 install ok installed libmbedcrypto16:amd64 libmbedcrypto16 3.6.4-2 install ok installed libmbedtls21:amd64 libmbedtls21 3.6.4-2 install ok installed libmbedx509-7:amd64 libmbedx509-7 3.6.4-2 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmongodb-java libmongodb-java 3.6.3-2 install ok installed libmount1:amd64 libmount1 2.41-5 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.2.1+dfsg-4 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.2.1+dfsg-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.1-1 install ok installed libngs-java:amd64 libngs-java 3.2.1+dfsg-4 install ok installed libngs-jni:amd64 libngs-jni 3.2.1+dfsg-4 install ok installed libnspr4:amd64 libnspr4 2:4.36-1 install ok installed libnss3:amd64 libnss3 2:3.110-1 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 10.45-1 install ok installed libpcsclite1:amd64 libpcsclite1 2.3.3-1 install ok installed librhino-java librhino-java 1.7.15-1 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2 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 libslf4j-java libslf4j-java 1.7.32-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.41-5 install ok installed libsnappy-java libsnappy-java 1.1.10.7-1 install ok installed libsnappy-jni libsnappy-jni 1.1.10.7-1 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.2.2-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-7 install ok installed libssl3t64:amd64 libssl3t64 3.5.1-1 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-19 install ok installed libsystemd0:amd64 libsystemd0 257.7-1 install ok installed libtinfo6:amd64 libtinfo6 6.5+20250216-2 install ok installed libudev1:amd64 libudev1 257.7-1 install ok installed libuuid1:amd64 libuuid1 2.41-5 install ok installed libxerces2-java libxerces2-java 2.12.2-1 install ok installed libxml-commons-external-java libxml-commons-external-java 1.4.01-6 install ok installed libxml-commons-resolver1.1-java libxml-commons-resolver1.1-java 1.2-11 install ok installed libxom-java libxom-java 1.3.9-1 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+really2.41-5 install ok installed login.defs login.defs 1:4.17.4-2 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed mount mount 2.41-5 install ok installed ncbi-vdb-data ncbi-vdb-data 3.2.1+dfsg-2 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 openjdk-21-jre-headless:amd64 openjdk-21-jre-headless 21.0.8+9-1 install ok installed openssl openssl 3.5.1-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.5.1-1 install ok installed passwd passwd 1:4.17.4-2 install ok installed perl-base perl-base 5.40.1-6 install ok installed sed sed 4.9-2 install ok installed sqv sqv 1.3.0-3 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 2025b-4 install ok installed util-linux util-linux 2.41-5 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'java-common', 'junit4', 'libapache-pom-java', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libezmorph-java', 'libgatk-native-bindings-java', 'libgoogle-gson-java', 'libhamcrest-java', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'liblcms2-2:amd64', 'liblightcouch-java', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'librhino-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libxerces2-java', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxom-java', 'ncbi-vdb-data', 'openjdk-21-jre-headless:amd64', 'openssl', 'libgkl-java'] 0m12.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates ca-certificates-java default-jre-headless java-common junit4 libapache-pom-java libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-parent-java libezmorph-java libgatk-native-bindings-java libgkl-java libgoogle-gson-java libhamcrest-java libhtsjdk-java libhttpclient-java libhttpcore-java libjaxen-java libjpeg62-turbo libjson-java liblcms2-2 liblightcouch-java liblog4j2-java libmbedcrypto16 libmbedtls21 libmbedx509-7 libmongodb-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni libnspr4 libnss3 libpcsclite1 librhino-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libxerces2-java libxml-commons-external-java libxml-commons-resolver1.1-java libxom-java ncbi-vdb-data openjdk-21-jre-headless openssl 0 upgraded, 0 newly installed, 53 to remove and 0 not upgraded. After this operation, 242 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 ... 6812 files and directories currently installed.) Removing libgkl-java (0.8.11+dfsg-2) ... Removing libhtsjdk-java (4.1.3+dfsg-2) ... Removing libjson-java (3.1.0+dfsg-2) ... Removing junit4 (4.13.2-5) ... Removing default-jre-headless (2:1.21-76) ... Removing openjdk-21-jre-headless:amd64 (21.0.8+9-1) ... Removing ca-certificates-java (20240118) ... Removing ca-certificates (20250419) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing java-common (0.76) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing liblog4j2-java (2.19.0-2) ... Removing liblightcouch-java (0.2.0-1) ... Removing libhttpclient-java (4.5.14-1) ... Removing libcommons-lang3-java (3.17.0-1) ... Removing libcommons-beanutils-java (1.10.1-1.1) ... Removing libcommons-compress-java (1.27.1-2) ... Removing libcommons-codec-java (1.18.0-1) ... Removing libcommons-collections3-java (3.2.2-3) ... Removing libcommons-collections4-java (4.4-2) ... Removing libcommons-io-java (2.19.0-1) ... Removing libezmorph-java (1.0.6-4) ... Removing libgatk-native-bindings-java (1.0.0+dfsg-2) ... Removing libgoogle-gson-java (2.10.1-1) ... Removing libhamcrest-java (2.2-2) ... Removing libhttpcore-java (4.4.16-1) ... Removing libxom-java (1.3.9-1) ... Removing libjaxen-java (1.1.6-5) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-4) ... Removing liblcms2-2:amd64 (2.16-2) ... Removing libngs-java:amd64 (3.2.1+dfsg-4) ... Removing libngs-jni:amd64 (3.2.1+dfsg-4) ... Removing libncbi-ngs3:amd64 (3.2.1+dfsg-4) ... Removing libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Removing libmbedtls21:amd64 (3.6.4-2) ... Removing libmbedx509-7:amd64 (3.6.4-2) ... Removing libmbedcrypto16:amd64 (3.6.4-2) ... Removing libmongodb-java (3.6.3-2) ... Removing libnss3:amd64 (2:3.110-1) ... Removing libnspr4:amd64 (2:4.36-1) ... Removing libpcsclite1:amd64 (2.3.3-1) ... Removing librhino-java (1.7.15-1) ... Removing libslf4j-java (1.7.32-2) ... Removing libsnappy-java (1.1.10.7-1) ... Removing libsnappy-jni (1.1.10.7-1) ... Removing libsnappy1v5:amd64 (1.2.2-1) ... Removing libxerces2-java (2.12.2-1) ... Removing libxml-commons-external-java (1.4.01-6) ... Removing libxml-commons-resolver1.1-java (1.2-11) ... Removing ncbi-vdb-data (3.2.1+dfsg-2) ... rm: cannot remove '/usr/lib/python3/dist-packages/__pycache__/vdb.*': No such file or directory Removing openssl (3.5.1-1) ... Removing libcommons-logging-java (1.3.0-2) ... Removing libcommons-parent-java (56-1) ... Removing libapache-pom-java (33-2) ... Processing triggers for libc-bin (2.41-12) ... 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'java-common', 'junit4', 'libapache-pom-java', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libezmorph-java', 'libgatk-native-bindings-java', 'libgoogle-gson-java', 'libhamcrest-java', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'liblcms2-2:amd64', 'liblightcouch-java', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'librhino-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libxerces2-java', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxom-java', 'ncbi-vdb-data', 'openjdk-21-jre-headless:amd64', 'openssl', 'libgkl-java'] 0m12.7s INFO: Running scripts post_remove 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_remove_exceptions'] 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_remove_exceptions'] 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'java-common', 'junit4', 'libapache-pom-java', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libezmorph-java', 'libgatk-native-bindings-java', 'libgoogle-gson-java', 'libhamcrest-java', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'liblcms2-2:amd64', 'liblightcouch-java', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'librhino-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libxerces2-java', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxom-java', 'ncbi-vdb-data', 'openjdk-21-jre-headless:amd64', 'openssl'] 0m12.8s DUMP: (Reading database ... 4983 files and directories currently installed.) Purging configuration files for ca-certificates (20250419) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20240118) ... dpkg: warning: ignoring request to remove default-jre-headless which isn't installed Purging configuration files for java-common (0.76) ... dpkg: warning: ignoring request to remove junit4 which isn't installed dpkg: warning: ignoring request to remove libapache-pom-java which isn't installed dpkg: warning: ignoring request to remove libcommons-beanutils-java which isn't installed dpkg: warning: ignoring request to remove libcommons-codec-java which isn't installed dpkg: warning: ignoring request to remove libcommons-collections3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-collections4-java which isn't installed dpkg: warning: ignoring request to remove libcommons-compress-java which isn't installed dpkg: warning: ignoring request to remove libcommons-io-java which isn't installed dpkg: warning: ignoring request to remove libcommons-jexl2-java which isn't installed dpkg: warning: ignoring request to remove libcommons-lang3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-logging-java which isn't installed dpkg: warning: ignoring request to remove libcommons-parent-java which isn't installed dpkg: warning: ignoring request to remove libezmorph-java which isn't installed dpkg: warning: ignoring request to remove libgatk-native-bindings-java which isn't installed dpkg: warning: ignoring request to remove libgoogle-gson-java which isn't installed dpkg: warning: ignoring request to remove libhamcrest-java which isn't installed dpkg: warning: ignoring request to remove libhtsjdk-java which isn't installed dpkg: warning: ignoring request to remove libhttpclient-java which isn't installed dpkg: warning: ignoring request to remove libhttpcore-java which isn't installed dpkg: warning: ignoring request to remove libjaxen-java which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjson-java which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove liblightcouch-java which isn't installed dpkg: warning: ignoring request to remove liblog4j2-java which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto16 which isn't installed dpkg: warning: ignoring request to remove libmbedtls21 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-7 which isn't installed dpkg: warning: ignoring request to remove libmongodb-java which isn't installed dpkg: warning: ignoring request to remove libncbi-ngs3 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 which isn't installed dpkg: warning: ignoring request to remove libngs-java which isn't installed dpkg: warning: ignoring request to remove libngs-jni which isn't installed dpkg: warning: ignoring request to remove libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove librhino-java which isn't installed dpkg: warning: ignoring request to remove libslf4j-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-jni which isn't installed dpkg: warning: ignoring request to remove libsnappy1v5 which isn't installed dpkg: warning: ignoring request to remove libxerces2-java which isn't installed dpkg: warning: ignoring request to remove libxml-commons-external-java which isn't installed Purging configuration files for libxml-commons-resolver1.1-java (1.2-11) ... dpkg: warning: ignoring request to remove libxom-java which isn't installed Purging configuration files for ncbi-vdb-data (3.2.1+dfsg-2) ... Purging configuration files for openjdk-21-jre-headless:amd64 (21.0.8+9-1) ... Purging configuration files for openssl (3.5.1-1) ... 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'java-common', 'junit4', 'libapache-pom-java', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libezmorph-java', 'libgatk-native-bindings-java', 'libgoogle-gson-java', 'libhamcrest-java', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'liblcms2-2:amd64', 'liblightcouch-java', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'librhino-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libxerces2-java', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxom-java', 'ncbi-vdb-data', 'openjdk-21-jre-headless:amd64', 'openssl'] 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--purge', 'libgkl-java'] 0m12.8s DUMP: dpkg: warning: ignoring request to remove libgkl-java which isn't installed 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--purge', 'libgkl-java'] 0m12.8s INFO: Running scripts post_purge 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_purge_exceptions'] 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_purge_exceptions'] 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--purge', '--pending'] 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--purge', '--pending'] 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--remove', '--pending'] 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg', '--remove', '--pending'] 0m12.8s INFO: Running scripts post_test 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_test_exceptions'] 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'tmp/scripts/post_test_exceptions'] 0m12.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m13.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg-divert', '--list'] 0m13.0s 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 0m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'dpkg-divert', '--list'] 0m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'clean'] 0m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_', 'apt-get', 'clean'] 0m13.0s DEBUG: Recording chroot state 0m13.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/shm'] 0m13.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/shm'] 0m13.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/console'] 0m13.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/console'] 0m13.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/ptmx'] 0m13.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/ptmx'] 0m13.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/pts'] 0m13.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/dev/pts'] 0m13.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/proc'] 0m13.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_/proc'] 0m13.7s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m13.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpjlasuiq_'] 0m13.8s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpjlasuiq_ 0m13.8s INFO: PASS: Upgrading between Debian distributions. 0m13.8s INFO: PASS: All tests. 0m13.8s INFO: piuparts run ends. ret=0 End: 2025-08-11 00:16:16 GMT