Start: 2022-01-19 06:03:06 GMT [testing] Package: profbval Version: 1.0.22-7 Installed-Size: 264 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, profnet-bval Recommends: blast2, librg-utils-perl, profphd Suggests: pp-popularity-contest Description: predictor of flexible/rigid protein residues from sequence Homepage: https://www.rostlab.org/owiki/index.php/PROFbval Description-md5: 7c39db9af750c32242cf98d34c9f3c4c Tag: biology::nucleic-acids, field::biology, role::debug-symbols Section: science Priority: optional Filename: pool/main/p/profbval/profbval_1.0.22-7_all.deb Size: 60332 MD5sum: 6393db6ba603209dd275add7e06f872e SHA256: f9cd039d6831751c4ddafc8765f234db072be4650571491e49e00c8bb1ce20da [sid] Package: profbval Version: 1.0.22-8 Installed-Size: 264 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, profnet-bval Recommends: blast2, librg-utils-perl, profphd Description: predictor of flexible/rigid protein residues from sequence Homepage: https://www.rostlab.org/owiki/index.php/PROFbval Description-md5: 7c39db9af750c32242cf98d34c9f3c4c Tag: biology::nucleic-acids, field::biology, role::debug-symbols Section: science Priority: optional Filename: pool/main/p/profbval/profbval_1.0.22-8_all.deb Size: 60200 MD5sum: 4558caf728724c358155d99487aba8e2 SHA256: 4db89d9451146d5550195a6b03332244e8143c9990ba3f576ac0cfe5924e8951 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt profbval=1.0.22-8 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 1.1.4 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt profbval=1.0.22-8 0m0.0s INFO: Running on: Linux piu-slave-conova-01 4.19.0-18-amd64 #1 SMP Debian 4.19.208-1 (2021-09-29) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpsdti1hco 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpsdti1hco 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m1.6s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m1.6s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/proc'] 0m1.6s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/proc'] 0m1.6s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/pts'] 0m1.6s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/pts'] 0m1.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/ptmx'] 0m1.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/ptmx'] 0m1.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/console'] 0m1.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/console'] 0m1.6s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/shm'] 0m1.6s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/shm'] 0m1.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m1.7s DEBUG: Created policy-rc.d and chmodded it. 0m1.7s DEBUG: Created resolv.conf. 0m1.7s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpsdti1hco/tmp/scripts/ 0m1.7s INFO: Running scripts post_chroot_unpack 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'update'] 0m4.2s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [129 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8251 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [5669 kB] Fetched 14.0 MB in 2s (7265 kB/s) Reading package lists... 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'update'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-yf', 'dist-upgrade'] 0m4.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-yf', 'dist-upgrade'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.0s DUMP: d1eea6609971f6fcb8f81c4f80d2a669 - 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.0s INFO: Running scripts post_setup 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_dummy_users'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_dummy_users'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_forbid_home'] 0m5.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_forbid_home'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.3s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_minimize'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_minimize'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_zz_backports'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_setup_zz_backports'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.4s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.3.14 install ok installed base-files base-files 12 install ok installed base-passwd base-passwd 3.5.52 install ok installed bash bash 5.1-6 install ok installed bsdutils bsdutils 1:2.37.2-6 install ok installed coreutils coreutils 8.32-4.1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-3 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.21.1 install ok installed e2fsprogs e2fsprogs 1.46.5-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.3.0-13 install ok installed gcc-11-base:amd64 gcc-11-base 11.2.0-13 install ok installed gpgv gpgv 2.2.27-3 install ok installed grep grep 3.7-1 install ok installed gzip gzip 1.10-4 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.61 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.3.14 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.6-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.6-1+b1 install ok installed libblkid1:amd64 libblkid1 2.37.2-6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5 install ok installed libc-bin libc-bin 2.33-2 install ok installed libc6:amd64 libc6 2.33-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.5-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.27-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.261 install ok installed libext2fs2:amd64 libext2fs2 1.46.5-2 install ok installed libffi8:amd64 libffi8 3.4.2-3 install ok installed libgcc-s1:amd64 libgcc-s1 11.2.0-13 install ok installed libgcrypt20:amd64 libgcrypt20 1.9.4-5 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-3 install ok installed libgnutls30:amd64 libgnutls30 3.7.2-5 install ok installed libgpg-error0:amd64 libgpg-error0 1.43-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-7 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.2-2 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-7 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-7 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-7 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2 install ok installed libmount1:amd64 libmount1 2.37.2-6 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.0-6 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-11 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-11 install ok installed libpam-runtime libpam-runtime 1.4.0-11 install ok installed libpam0g:amd64 libpam0g 1.4.0-11 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.39-3 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.3-2 install ok installed libselinux1:amd64 libselinux1 3.3-1+b1 install ok installed libsemanage-common libsemanage-common 3.3-1 install ok installed libsemanage2:amd64 libsemanage2 3.3-1+b1 install ok installed libsepol2:amd64 libsepol2 3.3-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.37.2-6 install ok installed libss2:amd64 libss2 1.46.5-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1m-1 install ok installed libstdc++6:amd64 libstdc++6 11.2.0-13 install ok installed libsystemd0:amd64 libsystemd0 250.2-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.18.0-4 install ok installed libtinfo6:amd64 libtinfo6 6.3-1 install ok installed libtirpc-common libtirpc-common 1.3.2-2 install ok installed libtirpc3:amd64 libtirpc3 1.3.2-2 install ok installed libudev1:amd64 libudev1 250.2-3 install ok installed libunistring2:amd64 libunistring2 0.9.10-6 install ok installed libuuid1:amd64 libuuid1 2.37.2-6 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-3 install ok installed login login 1:4.8.1-2 install ok installed logsave logsave 1.46.5-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.37.2-6 install ok installed ncurses-base ncurses-base 6.3-1 install ok installed ncurses-bin ncurses-bin 6.3-1 install ok installed passwd passwd 1:4.8.1-2 install ok installed perl-base perl-base 5.32.1-6 install ok installed sed sed 4.8-1 install ok installed sysvinit-utils sysvinit-utils 3.01-1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021e-1 install ok installed util-linux util-linux 2.37.2-6 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.4s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m5.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m5.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m5.7s INFO: Running scripts is_testable 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/is_testable_uninstallable'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/is_testable_uninstallable'] 0m5.7s INFO: Running scripts pre_test 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_test_exceptions'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_test_exceptions'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_test_root_password'] 0m5.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_test_root_password'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'show', '--no-all-versions', 'profbval'] 0m5.9s DUMP: Package: profbval Version: 1.0.22-7 Installed-Size: 264 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, profnet-bval Recommends: blast2, librg-utils-perl, profphd Suggests: pp-popularity-contest Description-en: predictor of flexible/rigid protein residues from sequence PROFbval can be useful for both protein structure and function predictions. For instance, a biologist can locate potentially antigenic determinants by identifying the most flexible residues on the protein surface. Additionally, a crystallographer can locate residues that potentially have high experimental B-values. . PROFbval takes the following input, further described on profbval(1): * a protein sequence in a FASTA file * secondary structure and solvent accessibility prediction by prof(1) * an HSSP file . Background: the mobility of a given residue on the protein surface is related to its functional role. Therefore, identification of extremely rigid or flexible residues on the protein surface is helpful for identifying functionally important residues in proteins. A common measure of atom mobility in proteins is B-value data from x-ray crystallography structures. PROFbval is the first tool to predict normalized backbone B-values from amino-acid sequence. Description-md5: 7c39db9af750c32242cf98d34c9f3c4c Homepage: https://www.rostlab.org/owiki/index.php/PROFbval Tag: biology::nucleic-acids, field::biology, role::debug-symbols Section: science Priority: optional Filename: pool/main/p/profbval/profbval_1.0.22-7_all.deb Size: 60332 MD5sum: 6393db6ba603209dd275add7e06f872e SHA256: f9cd039d6831751c4ddafc8765f234db072be4650571491e49e00c8bb1ce20da 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'show', '--no-all-versions', 'profbval'] 0m5.9s INFO: apt-cache knows about the following packages: profbval 0m5.9s INFO: Running scripts pre_install 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_database-server'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_database-server'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_exceptions'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_exceptions'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_extras'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_extras'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy'] 0m6.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release o=Debian,a=testing,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy', 'profbval'] 0m6.0s DUMP: profbval: Installed: (none) Candidate: 1.0.22-7 Version table: 1.0.22-7 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy', 'profbval'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-y', 'install', 'profbval'] 0m7.6s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: libgdbm-compat4 libgdbm6 libgfortran5 libperl5.32 libquadmath0 perl perl-modules-5.32 profnet-bval Suggested packages: gdbm-l10n sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl pp-popularity-contest Recommended packages: netbase blast2 librg-utils-perl profphd The following NEW packages will be installed: libgdbm-compat4 libgdbm6 libgfortran5 libperl5.32 libquadmath0 perl perl-modules-5.32 profbval profnet-bval 0 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. Need to get 8321 kB of archives. After this operation, 50.9 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.32 all 5.32.1-6 [2824 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.22-1 [82.1 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.22-1 [56.3 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.32 amd64 5.32.1-6 [4106 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.32.1-6 [293 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 11.2.0-13 [145 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 11.2.0-13 [709 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 profnet-bval amd64 1.0.22-7 [45.4 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 profbval all 1.0.22-7 [60.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 8321 kB in 0s (97.3 MB/s) Selecting previously unselected package perl-modules-5.32. (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 ... 6676 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.32_5.32.1-6_all.deb ... Unpacking perl-modules-5.32 (5.32.1-6) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.22-1_amd64.deb ... Unpacking libgdbm6:amd64 (1.22-1) ... Selecting previously unselected package libgdbm-compat4:amd64. Preparing to unpack .../2-libgdbm-compat4_1.22-1_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.22-1) ... Selecting previously unselected package libperl5.32:amd64. Preparing to unpack .../3-libperl5.32_5.32.1-6_amd64.deb ... Unpacking libperl5.32:amd64 (5.32.1-6) ... Selecting previously unselected package perl. Preparing to unpack .../4-perl_5.32.1-6_amd64.deb ... Unpacking perl (5.32.1-6) ... Selecting previously unselected package libquadmath0:amd64. Preparing to unpack .../5-libquadmath0_11.2.0-13_amd64.deb ... Unpacking libquadmath0:amd64 (11.2.0-13) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../6-libgfortran5_11.2.0-13_amd64.deb ... Unpacking libgfortran5:amd64 (11.2.0-13) ... Selecting previously unselected package profnet-bval. Preparing to unpack .../7-profnet-bval_1.0.22-7_amd64.deb ... Unpacking profnet-bval (1.0.22-7) ... Selecting previously unselected package profbval. Preparing to unpack .../8-profbval_1.0.22-7_all.deb ... Unpacking profbval (1.0.22-7) ... Setting up perl-modules-5.32 (5.32.1-6) ... Setting up libquadmath0:amd64 (11.2.0-13) ... Setting up libgfortran5:amd64 (11.2.0-13) ... Setting up libgdbm6:amd64 (1.22-1) ... Setting up profnet-bval (1.0.22-7) ... Setting up libgdbm-compat4:amd64 (1.22-1) ... Setting up libperl5.32:amd64 (5.32.1-6) ... Setting up perl (5.32.1-6) ... Setting up profbval (1.0.22-7) ... Processing triggers for libc-bin (2.33-2) ... 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-y', 'install', 'profbval'] 0m7.6s INFO: Running scripts post_install 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_install_exceptions'] 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_install_exceptions'] 0m7.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m8.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m8.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpsdti1hco to sid 0m8.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m8.0s INFO: Running scripts pre_distupgrade 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_exceptions'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_exceptions'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'update'] 0m11.1s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [165 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [8887 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6669 kB] Fetched 15.7 MB in 2s (6986 kB/s) Reading package lists... 0m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'update'] 0m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-yf', 'dist-upgrade'] 0m13.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: debianutils gcc-10-base gcc-11-base libc-bin libc6 libffi8 libgcc-s1 libgfortran5 libgpg-error0 libquadmath0 libstdc++6 libsystemd0 libtinfo6 libudev1 libxxhash0 ncurses-base ncurses-bin profbval 18 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 7483 kB of archives. After this operation, 26.6 kB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 debianutils amd64 5.5-1 [93.7 kB] Get:2 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.3-2 [439 kB] Get:3 http://deb.debian.org/debian sid/main amd64 gcc-11-base amd64 11.2.0-14 [207 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 11.2.0-14 [42.0 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 11.2.0-14 [144 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 11.2.0-14 [710 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 11.2.0-14 [577 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.33-3 [2831 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.33-3 [829 kB] Get:10 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.3-2 [278 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 250.3-1 [404 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.4.2-4 [24.7 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.43-3 [82.2 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.3-2 [349 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 250.3-1 [178 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libxxhash0 amd64 0.8.1-1 [27.6 kB] Get:17 http://deb.debian.org/debian sid/main amd64 gcc-10-base amd64 10.3.0-14 [206 kB] Get:18 http://deb.debian.org/debian sid/main amd64 profbval all 1.0.22-8 [60.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7483 kB in 0s (98.7 MB/s) (Reading database ... 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Processing triggers for libc-bin (2.33-3) ... 0m13.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-yf', 'dist-upgrade'] 0m13.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m13.9s DUMP: 020be2b60400f5cf8a84a908b12ae55a - 0m13.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m13.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'show', '--no-all-versions', 'profbval'] 0m14.1s DUMP: Package: profbval Version: 1.0.22-8 Installed-Size: 264 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, profnet-bval Recommends: blast2, librg-utils-perl, profphd Description-en: predictor of flexible/rigid protein residues from sequence PROFbval can be useful for both protein structure and function predictions. For instance, a biologist can locate potentially antigenic determinants by identifying the most flexible residues on the protein surface. Additionally, a crystallographer can locate residues that potentially have high experimental B-values. . PROFbval takes the following input, further described on profbval(1): * a protein sequence in a FASTA file * secondary structure and solvent accessibility prediction by prof(1) * an HSSP file . Background: the mobility of a given residue on the protein surface is related to its functional role. Therefore, identification of extremely rigid or flexible residues on the protein surface is helpful for identifying functionally important residues in proteins. A common measure of atom mobility in proteins is B-value data from x-ray crystallography structures. PROFbval is the first tool to predict normalized backbone B-values from amino-acid sequence. Description-md5: 7c39db9af750c32242cf98d34c9f3c4c Homepage: https://www.rostlab.org/owiki/index.php/PROFbval Tag: biology::nucleic-acids, field::biology, role::debug-symbols Section: science Priority: optional Filename: pool/main/p/profbval/profbval_1.0.22-8_all.deb Size: 60200 MD5sum: 4558caf728724c358155d99487aba8e2 SHA256: 4db89d9451146d5550195a6b03332244e8143c9990ba3f576ac0cfe5924e8951 0m14.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'show', '--no-all-versions', 'profbval'] 0m14.1s INFO: apt-cache knows about the following packages: profbval 0m14.1s INFO: Running scripts pre_install 0m14.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_database-server'] 0m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_database-server'] 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_exceptions'] 0m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_exceptions'] 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_extras'] 0m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_extras'] 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture'] 0m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture'] 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy'] 0m14.3s 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: 0m14.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy'] 0m14.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy', 'profbval'] 0m14.3s DUMP: profbval: Installed: 1.0.22-8 Candidate: 1.0.22-8 Version table: *** 1.0.22-8 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m14.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy', 'profbval'] 0m14.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-y', 'install', 'profbval'] 0m14.8s DUMP: Reading package lists... Building dependency tree... Reading state information... profbval is already the newest version (1.0.22-8). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-y', 'install', 'profbval'] 0m14.8s INFO: Running scripts post_install 0m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_install_exceptions'] 0m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_install_exceptions'] 0m14.8s INFO: Running scripts post_distupgrade 0m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_exceptions'] 0m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_exceptions'] 0m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_zz_backports'] 0m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_distupgrade_zz_backports'] 0m14.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m15.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m15.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m15.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m15.7s INFO: Running scripts pre_install 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_database-server'] 0m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_database-server'] 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_exceptions'] 0m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_exceptions'] 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_extras'] 0m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_extras'] 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture'] 0m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture'] 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy'] 0m15.7s 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: 0m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy'] 0m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy', 'profbval'] 0m15.8s DUMP: profbval: Installed: 1.0.22-8 Candidate: 1.0.22-8 Version table: *** 1.0.22-8 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m15.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-cache', 'policy', 'profbval'] 0m15.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-y', 'install', 'profbval=1.0.22-8'] 0m16.0s DUMP: Reading package lists... Building dependency tree... Reading state information... profbval is already the newest version (1.0.22-8). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m16.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', '-y', 'install', 'profbval=1.0.22-8'] 0m16.0s INFO: Running scripts post_install 0m16.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_install_exceptions'] 0m16.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_install_exceptions'] 0m16.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m16.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m16.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', '-ac', '--ignore-obsolete'] 0m17.6s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', '-ac', '--ignore-obsolete'] 0m17.6s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m17.7s DUMP: 0.15.2 0m17.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m17.7s INFO: Running adequate version 0.15.2 now. 0m17.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'profbval'] 0m17.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'profbval'] 0m17.8s INFO: Running scripts pre_remove 0m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m18.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m18.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_exceptions'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/pre_remove_exceptions'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m19.1s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.3.14 install ok installed base-files base-files 12 install ok installed base-passwd base-passwd 3.5.52 install ok installed bash bash 5.1-6 install ok installed bsdutils bsdutils 1:2.37.2-6 install ok installed coreutils coreutils 8.32-4.1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-3 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.5-1 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.21.1 install ok installed e2fsprogs e2fsprogs 1.46.5-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.3.0-14 install ok installed gcc-11-base:amd64 gcc-11-base 11.2.0-14 install ok installed gpgv gpgv 2.2.27-3 install ok installed grep grep 3.7-1 install ok installed gzip gzip 1.10-4 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.61 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.3.14 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.6-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.6-1+b1 install ok installed libblkid1:amd64 libblkid1 2.37.2-6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5 install ok installed libc-bin libc-bin 2.33-3 install ok installed libc6:amd64 libc6 2.33-3 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.5-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.27-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.261 install ok installed libext2fs2:amd64 libext2fs2 1.46.5-2 install ok installed libffi8:amd64 libffi8 3.4.2-4 install ok installed libgcc-s1:amd64 libgcc-s1 11.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.9.4-5 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.22-1 install ok installed libgdbm6:amd64 libgdbm6 1.22-1 install ok installed libgfortran5:amd64 libgfortran5 11.2.0-14 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-3 install ok installed libgnutls30:amd64 libgnutls30 3.7.2-5 install ok installed libgpg-error0:amd64 libgpg-error0 1.43-3 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-7 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.2-2 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-7 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-7 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-7 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2 install ok installed libmount1:amd64 libmount1 2.37.2-6 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.0-6 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-11 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-11 install ok installed libpam-runtime libpam-runtime 1.4.0-11 install ok installed libpam0g:amd64 libpam0g 1.4.0-11 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.39-3 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libperl5.32:amd64 libperl5.32 5.32.1-6 install ok installed libquadmath0:amd64 libquadmath0 11.2.0-14 install ok installed libseccomp2:amd64 libseccomp2 2.5.3-2 install ok installed libselinux1:amd64 libselinux1 3.3-1+b1 install ok installed libsemanage-common libsemanage-common 3.3-1 install ok installed libsemanage2:amd64 libsemanage2 3.3-1+b1 install ok installed libsepol2:amd64 libsepol2 3.3-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.37.2-6 install ok installed libss2:amd64 libss2 1.46.5-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1m-1 install ok installed libstdc++6:amd64 libstdc++6 11.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 250.3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.18.0-4 install ok installed libtinfo6:amd64 libtinfo6 6.3-2 install ok installed libtirpc-common libtirpc-common 1.3.2-2 install ok installed libtirpc3:amd64 libtirpc3 1.3.2-2 install ok installed libudev1:amd64 libudev1 250.3-1 install ok installed libunistring2:amd64 libunistring2 0.9.10-6 install ok installed libuuid1:amd64 libuuid1 2.37.2-6 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-3 install ok installed login login 1:4.8.1-2 install ok installed logsave logsave 1.46.5-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.37.2-6 install ok installed ncurses-base ncurses-base 6.3-2 install ok installed ncurses-bin ncurses-bin 6.3-2 install ok installed passwd passwd 1:4.8.1-2 install ok installed perl perl 5.32.1-6 install ok installed perl-base perl-base 5.32.1-6 install ok installed perl-modules-5.32 perl-modules-5.32 5.32.1-6 install ok installed profbval profbval 1.0.22-8 install ok installed profnet-bval profnet-bval 1.0.22-7 install ok installed sed sed 4.8-1 install ok installed sysvinit-utils sysvinit-utils 3.01-1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021e-1 install ok installed util-linux util-linux 2.37.2-6 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'remove', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libperl5.32:amd64', 'libquadmath0:amd64', 'perl', 'perl-modules-5.32', 'profnet-bval', 'profbval'] 0m19.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: libgdbm-compat4 libgdbm6 libgfortran5 libperl5.32 libquadmath0 perl perl-modules-5.32 profbval profnet-bval 0 upgraded, 0 newly installed, 9 to remove and 0 not upgraded. After this operation, 50.9 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 ... 8678 files and directories currently installed.) Removing profbval (1.0.22-8) ... Removing perl (5.32.1-6) ... Removing libperl5.32:amd64 (5.32.1-6) ... Removing libgdbm-compat4:amd64 (1.22-1) ... Removing libgdbm6:amd64 (1.22-1) ... Removing profnet-bval (1.0.22-7) ... Removing libgfortran5:amd64 (11.2.0-14) ... Removing libquadmath0:amd64 (11.2.0-14) ... Removing perl-modules-5.32 (5.32.1-6) ... Processing triggers for libc-bin (2.33-3) ... 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'remove', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libperl5.32:amd64', 'libquadmath0:amd64', 'perl', 'perl-modules-5.32', 'profnet-bval', 'profbval'] 0m19.9s INFO: Running scripts post_remove 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_remove_exceptions'] 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_remove_exceptions'] 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--purge', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libperl5.32:amd64', 'libquadmath0:amd64', 'perl', 'perl-modules-5.32', 'profnet-bval'] 0m20.0s DUMP: dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libperl5.32 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed (Reading database ... 6675 files and directories currently installed.) Purging configuration files for perl (5.32.1-6) ... dpkg: warning: ignoring request to remove perl-modules-5.32 which isn't installed dpkg: warning: ignoring request to remove profnet-bval which isn't installed 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--purge', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libperl5.32:amd64', 'libquadmath0:amd64', 'perl', 'perl-modules-5.32', 'profnet-bval'] 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--purge', 'profbval'] 0m20.0s DUMP: dpkg: warning: ignoring request to remove profbval which isn't installed 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--purge', 'profbval'] 0m20.0s INFO: Running scripts post_purge 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_purge_exceptions'] 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_purge_exceptions'] 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--purge', '--pending'] 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--purge', '--pending'] 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--remove', '--pending'] 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg', '--remove', '--pending'] 0m20.0s INFO: Running scripts post_test 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_test_exceptions'] 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'tmp/scripts/post_test_exceptions'] 0m20.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m20.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg-divert', '--list'] 0m20.5s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'dpkg-divert', '--list'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'clean'] 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsdti1hco', 'apt-get', 'clean'] 0m20.5s DEBUG: Recording chroot state 0m21.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/shm'] 0m21.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/shm'] 0m21.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/console'] 0m21.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/console'] 0m21.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/ptmx'] 0m21.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/ptmx'] 0m21.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/pts'] 0m21.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/dev/pts'] 0m21.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/proc'] 0m21.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsdti1hco/proc'] 0m21.8s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m21.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpsdti1hco'] 0m21.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpsdti1hco 0m22.0s INFO: PASS: Upgrading between Debian distributions. 0m22.0s INFO: PASS: All tests. 0m22.0s INFO: piuparts run ends. ret=0 End: 2022-01-19 06:03:28 GMT