Start: 2025-04-11 15:56:12 GMT
[stable]
Package: cp2k
Version: 2023.1-2
Installed-Size: 51059
Maintainer: Debichem Team <debichem-devel@lists.alioth.debian.org>
Architecture: amd64
Depends: cp2k-data (= 2023.1-2), libblas3 | libblas.so.3, libc6 (>= 2.35), libelpa19 (>= 2022.11.001), libfftw3-double3 (>= 3.3.10), libgcc-s1 (>= 4.0), libgfortran5 (>= 10), libgomp1 (>= 6), libint2-2, liblapack3 | liblapack.so.3, libopenmpi3 (>= 4.1.4), libscalapack-openmpi2.2 (>= 2.2.1), libsymspg1 (>= 2.0.2-1+b2), libxc9 (>= 5.1.6)
Description: Ab Initio Molecular Dynamics
Homepage: http://www.cp2k.org
Description-md5: 37c89754b1cfba92136be3fd32ced61d
Section: science
Priority: optional
Filename: pool/main/c/cp2k/cp2k_2023.1-2_amd64.deb
Size: 16829516
MD5sum: 802f8257d356944fcea7a7406d4ea25a
SHA256: 6033bab15f7044ad0447fe76614b3a38574b474a64a819356cefd515ec807d35
[sid]
Package: cp2k
Version: 2025.1-1.1
Installed-Size: 61552
Maintainer: Debichem Team <debichem-devel@lists.alioth.debian.org>
Architecture: amd64
Depends: cp2k-data (= 2025.1-1.1), libblas3 | libblas.so.3, libc6 (>= 2.35), libelpa19 (>= 2022.11.001), libfftw3-double3 (>= 3.3.10), libgcc-s1 (>= 4.0), libgfortran5 (>= 10), libgomp1 (>= 6), libint2-2t64, liblapack3 | liblapack.so.3, libopenmpi40 (>= 5.0.7), libscalapack-openmpi2.2 (>= 2.2.2), libsymspg2 (>= 2.6.0), libxc9 (>= 5.1.6)
Description: Ab Initio Molecular Dynamics
Homepage: http://www.cp2k.org
Description-md5: 37c89754b1cfba92136be3fd32ced61d
Section: science
Priority: optional
Filename: pool/main/c/cp2k/cp2k_2025.1-1.1_amd64.deb
Size: 18964392
MD5sum: 3ad86a3e1d8911aa16043cd20cf64e99
SHA256: 1dc0614c812d75c04d006eacc73d684c4904084f11f258b69b83c587d2bc275d
Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d stable -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable2sid/reference-chroot-metadata.dat --apt cp2k=2025.1-1.1
0m0.0s INFO: ------------------------------------------------------------------------------
0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile.
0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ
0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong.
0m0.0s INFO: ------------------------------------------------------------------------------
0m0.0s INFO: piuparts version 1.5.2~202503162239~1.5.1-10-g345d5865 starting up.
0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/bin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d stable -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable2sid/reference-chroot-metadata.dat --apt cp2k=2025.1-1.1
0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-34-amd64 #1 SMP Debian 5.10.234-1 (2025-02-24) x86_64
0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmph7lviocg
0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmph7lviocg
0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmph7lviocg', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz']
0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmph7lviocg', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz']
0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmph7lviocg/proc']
0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmph7lviocg/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/tmph7lviocg/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/tmph7lviocg/dev/pts']
0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/ptmx']
0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/ptmx']
0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/console']
0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/console']
0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/shm']
0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/shm']
0m0.2s DEBUG: sources.list:
deb http://deb.debian.org/debian/ bookworm 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/tmph7lviocg/tmp/scripts/
0m0.2s INFO: Running scripts post_chroot_unpack
0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated']
0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated']
0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'update']
0m0.7s DUMP:
Hit:1 http://deb.debian.org/debian bookworm InRelease
Reading package lists...
0m0.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'update']
0m0.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-yf', 'dist-upgrade']
0m0.9s DUMP:
Reading package lists...
Building dependency tree...
Calculating upgrade...
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
0m0.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-yf', 'dist-upgrade']
0m0.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'sh', '-c', 'apt-cache dumpavail | md5sum']
0m1.0s DUMP:
3b6124cc38d42e60354965f1a19282fe -
0m1.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'sh', '-c', 'apt-cache dumpavail | md5sum']
0m1.0s INFO: Running scripts post_setup
0m1.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_dummy_users']
0m1.5s 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
0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_dummy_users']
0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_forbid_home']
0m1.5s DUMP:
Disabling /home
Adding 'local diversion of /home to /home.distrib'
0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_forbid_home']
0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_force-unsafe-io']
0m1.5s DUMP:
Enabling dpkg --force-unsafe-io.
Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib'
Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged'
'/bin/sync' -> 'true'
0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_force-unsafe-io']
0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_minimize']
0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_minimize']
0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_squeeze-backports']
0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_squeeze-backports']
0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_zz_backports']
0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_setup_zz_backports']
0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m1.5s DUMP:
install ok installed adduser adduser 3.134
install ok installed apt apt 2.6.1
install ok installed base-files base-files 12.4+deb12u10
install ok installed base-passwd base-passwd 3.6.1
install ok installed bash bash 5.2.15-2+b7
install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u3
install ok installed coreutils coreutils 9.1-1
install ok installed dash dash 0.5.12-2
install ok installed debconf debconf 1.5.82
install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1
install ok installed debianutils debianutils 5.7-0.5~deb12u1
install ok installed diffutils diffutils 1:3.8-4
install ok installed dpkg dpkg 1.21.22
install ok installed e2fsprogs e2fsprogs 1.47.0-2
install ok installed findutils findutils 4.9.0-4
install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14
install ok installed gpgv gpgv 2.2.40-1.1
install ok installed grep grep 3.8-5
install ok installed gzip gzip 1.12-1
install ok installed hostname hostname 3.23+nmu1
install ok installed init-system-helpers init-system-helpers 1.65.2
install ok installed libacl1:amd64 libacl1 2.3.1-3
install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1
install ok installed libattr1:amd64 libattr1 1:2.5.1-4
install ok installed libaudit-common libaudit-common 1:3.0.9-1
install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1
install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u3
install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1
install ok installed libc-bin libc-bin 2.36-9+deb12u10
install ok installed libc6:amd64 libc6 2.36-9+deb12u10
install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3
install ok installed libcap2:amd64 libcap2 1:2.66-4
install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2
install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2
install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1
install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270
install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2
install ok installed libffi8:amd64 libffi8 3.4.4-1
install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14
install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3
install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1
install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u4
install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1
install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2
install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1
install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1
install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2
install ok installed libmd0:amd64 libmd0 1.0.4-2
install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u3
install ok installed libnettle8:amd64 libnettle8 3.8.1-2
install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2
install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1
install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1
install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1
install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1
install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1
install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1
install ok installed libselinux1:amd64 libselinux1 3.4-1+b6
install ok installed libsemanage-common libsemanage-common 3.4-1
install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5
install ok installed libsepol2:amd64 libsepol2 3.4-2.1
install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u3
install ok installed libss2:amd64 libss2 1.47.0-2
install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14
install ok installed libsystemd0:amd64 libsystemd0 252.36-1~deb12u1
install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2+deb12u1
install ok installed libtinfo6:amd64 libtinfo6 6.4-4
install ok installed libudev1:amd64 libudev1 252.36-1~deb12u1
install ok installed libunistring2:amd64 libunistring2 1.0-2
install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u3
install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1
install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5
install ok installed login login 1:4.13+dfsg1-1+b1
install ok installed logsave logsave 1.47.0-2
install ok installed mawk mawk 1.3.4.20200120-3.1
install ok installed mount mount 2.38.1-5+deb12u3
install ok installed ncurses-base ncurses-base 6.4-4
install ok installed ncurses-bin ncurses-bin 6.4-4
install ok installed passwd passwd 1:4.13+dfsg1-1+b1
install ok installed perl-base perl-base 5.36.0-7+deb12u1
install ok installed sed sed 4.9-1
install ok installed sysvinit-utils sysvinit-utils 3.06-4
install ok installed tar tar 1.34+dfsg-1.2+deb12u1
install ok installed tzdata tzdata 2025a-0+deb12u1
install ok installed usr-is-merged usr-is-merged 37~deb12u1
install ok installed util-linux util-linux 2.38.1-5+deb12u3
install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u3
install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1
0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m1.5s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stable2sid/reference-chroot-metadata.dat
0m1.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m1.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m1.7s INFO: Running scripts is_testable
0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/is_testable_uninstallable']
0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/is_testable_uninstallable']
0m1.7s INFO: Running scripts pre_test
0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_test_exceptions']
0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_test_exceptions']
0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_test_root_password']
0m1.8s DUMP:
New password: Retype new password: passwd: password updated successfully
0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_test_root_password']
0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'show', '--no-all-versions', 'cp2k']
0m1.8s DUMP:
Package: cp2k
Version: 2023.1-2
Installed-Size: 51059
Maintainer: Debichem Team <debichem-devel@lists.alioth.debian.org>
Architecture: amd64
Depends: cp2k-data (= 2023.1-2), libblas3 | libblas.so.3, libc6 (>= 2.35), libelpa19 (>= 2022.11.001), libfftw3-double3 (>= 3.3.10), libgcc-s1 (>= 4.0), libgfortran5 (>= 10), libgomp1 (>= 6), libint2-2, liblapack3 | liblapack.so.3, libopenmpi3 (>= 4.1.4), libscalapack-openmpi2.2 (>= 2.2.1), libsymspg1 (>= 2.0.2-1+b2), libxc9 (>= 5.1.6)
Description-en: Ab Initio Molecular Dynamics
CP2K is a program to perform simulations of solid state, liquid, molecular and
biological systems. It is especially aimed at massively parallel and linear
scaling electronic structure methods and state-of-the-art ab-initio molecular
dynamics (AIMD) simulations.
.
CP2K is optimized for the mixed Gaussian and Plane-Waves (GPW) method based on
pseudopotentials, but is able to run all-electron or pure plane-wave/Gaussian
calculations as well. Features include:
.
Ab-initio Electronic Structure Theory Methods using the QUICKSTEP module:
.
* Density-Functional Theory (DFT) energies and forces
* Hartree-Fock (HF) energies and forces
* Moeller-Plesset 2nd order perturbation theory (MP2) energies and forces
* Random Phase Approximation (RPA) energies
* Gas phase or Periodic boundary conditions (PBC)
* Basis sets include various standard Gaussian-Type Orbitals (GTOs), Pseudo-
potential plane-waves (PW), and a mixed Gaussian and (augmented) plane wave
approach (GPW/GAPW)
* Norm-conserving, seperable Goedecker-Teter-Hutter (GTH) and non-linear core
corrected (NLCC) pseudopotentials, or all-electron calculations
* Local Density Approximation (LDA) XC functionals including SVWN3, SVWN5,
PW92 and PADE
* Gradient-corrected (GGA) XC functionals including BLYP, BP86, PW91, PBE and
HCTH120 as well as the meta-GGA XC functional TPSS
* Hybrid XC functionals with exact Hartree-Fock Exchange (HFX) including
B3LYP, PBE0 and MCY3
* Double-hybrid XC functionals including B2PLYP and B2GPPLYP
* Additional XC functionals via LibXC
* Dispersion corrections via DFT-D2 and DFT-D3 pair-potential models
* Non-local van der Waals corrections for XC functionals including B88-vdW,
PBE-vdW and B97X-D
* DFT+U (Hubbard) correction
* Density-Fitting for DFT via Bloechl or Density Derived Atomic Point Charges
(DDAPC) charges, for HFX via Auxiliary Density Matrix Methods (ADMM) and
for MP2/RPA via Resolution-of-identity (RI)
* Sparse matrix and prescreening techniques for linear-scaling Kohn-Sham (KS)
matrix computation
* Orbital Transformation (OT) or Direct Inversion of the iterative subspace
(DIIS) self-consistent field (SCF) minimizer
* Local Resolution-of-Identity Projector Augmented Wave method (LRIGPW)
* Absolutely Localized Molecular Orbitals SCF (ALMO-SCF) energies for linear
scaling of molecular systems
* Excited states via time-dependent density-functional perturbation theory
(TDDFPT)
.
Ab-initio Molecular Dynamics:
.
* Born-Oppenheimer Molecular Dynamics (BOMD)
* Ehrenfest Molecular Dynamics (EMD)
* PS extrapolation of initial wavefunction
* Time-reversible Always Stable Predictor-Corrector (ASPC) integrator
* Approximate Car-Parrinello like Langevin Born-Oppenheimer Molecular Dynamics
(Second-Generation Car-Parrinello Molecular Dynamics (SGCP))
.
Mixed quantum-classical (QM/MM) simulations:
.
* Real-space multigrid approach for the evaluation of the Coulomb
interactions between the QM and the MM part
* Linear-scaling electrostatic coupling treating of periodic boundary
conditions
* Adaptive QM/MM
.
Further Features include:
.
* Single-point energies, geometry optimizations and frequency calculations
* Several nudged-elastic band (NEB) algorithms (B-NEB, IT-NEB, CI-NEB, D-NEB)
for minimum energy path (MEP) calculations
* Global optimization of geometries
* Solvation via the Self-Consistent Continuum Solvation (SCCS) model
* Semi-Empirical calculations including the AM1, RM1, PM3, MNDO, MNDO-d, PNNL
and PM6 parametrizations, density-functional tight-binding (DFTB) and
self-consistent-polarization tight-binding (SCP-TB), with or without
periodic boundary conditions
* Classical Molecular Dynamics (MD) simulations in microcanonical ensemble
(NVE) or canonical ensmble (NVT) with Nose-Hover and canonical sampling
through velocity rescaling (CSVR) thermostats
* Metadynamics including well-tempered Metadynamics for Free Energy
calculations
* Classical Force-Field (MM) simulations
* Monte-Carlo (MC) KS-DFT simulations
* Static (e.g. spectra) and dynamical (e.g. diffusion) properties
* ATOM code for pseudopotential generation
* Integrated molecular basis set optimization
.
CP2K does not implement conventional Car-Parrinello Molecular Dynamics (CPMD).
Description-md5: 37c89754b1cfba92136be3fd32ced61d
Homepage: http://www.cp2k.org
Section: science
Priority: optional
Filename: pool/main/c/cp2k/cp2k_2023.1-2_amd64.deb
Size: 16829516
MD5sum: 802f8257d356944fcea7a7406d4ea25a
SHA256: 6033bab15f7044ad0447fe76614b3a38574b474a64a819356cefd515ec807d35
0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'show', '--no-all-versions', 'cp2k']
0m1.8s INFO: apt-cache knows about the following packages: cp2k
0m1.8s INFO: Running scripts pre_install
0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_database-server']
0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_database-server']
0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_exceptions']
0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_exceptions']
0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_extras']
0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_extras']
0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture']
0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture']
0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy']
0m1.9s DUMP:
Package files:
100 /var/lib/dpkg/status
release a=now
500 http://deb.debian.org/debian bookworm/main amd64 Packages
release v=12.10,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64
origin deb.debian.org
Pinned packages:
0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy']
0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy', 'cp2k']
0m1.9s DUMP:
cp2k:
Installed: (none)
Candidate: 2023.1-2
Version table:
2023.1-2 500
500 http://deb.debian.org/debian bookworm/main amd64 Packages
0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy', 'cp2k']
0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-y', 'install', 'cp2k']
0m7.9s DUMP:
Reading package lists...
Building dependency tree...
The following additional packages will be installed:
cp2k-data ibverbs-providers libatomic1 libblas3 libbsd0 libcbor0.8 libedit2
libelpa19 libevent-core-2.1-7 libevent-pthreads-2.1-7 libfabric1
libfftw3-double3 libfido2-1 libgfortran5 libgomp1 libgssapi-krb5-2
libhwloc-plugins libhwloc15 libibverbs1 libicu72 libint2-2 libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libmunge2 libnl-3-200
libnl-route-3-200 libnuma1 libopenmpi3 libpciaccess0 libpmix2
libpsm-infinipath1 libpsm2-2 libquadmath0 librdmacm1 libscalapack-openmpi2.2
libssl3 libsymspg1 libucx0 libx11-6 libx11-data libxau6 libxc9 libxcb1
libxdmcp6 libxext6 libxml2 libxnvctrl0 mpi-default-bin ocl-icd-libopencl1
openmpi-bin openmpi-common openssh-client
Suggested packages:
libfftw3-bin libfftw3-dev krb5-doc krb5-user libhwloc-contrib-plugins
pciutils scalapack-doc opencl-icd gfortran | fortran-compiler keychain
libpam-ssh monkeysphere ssh-askpass
Recommended packages:
krb5-locales xauth
The following NEW packages will be installed:
cp2k cp2k-data ibverbs-providers libatomic1 libblas3 libbsd0 libcbor0.8
libedit2 libelpa19 libevent-core-2.1-7 libevent-pthreads-2.1-7 libfabric1
libfftw3-double3 libfido2-1 libgfortran5 libgomp1 libgssapi-krb5-2
libhwloc-plugins libhwloc15 libibverbs1 libicu72 libint2-2 libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libmunge2 libnl-3-200
libnl-route-3-200 libnuma1 libopenmpi3 libpciaccess0 libpmix2
libpsm-infinipath1 libpsm2-2 libquadmath0 librdmacm1 libscalapack-openmpi2.2
libssl3 libsymspg1 libucx0 libx11-6 libx11-data libxau6 libxc9 libxcb1
libxdmcp6 libxext6 libxml2 libxnvctrl0 mpi-default-bin ocl-icd-libopencl1
openmpi-bin openmpi-common openssh-client
0 upgraded, 56 newly installed, 0 to remove and 0 not upgraded.
Need to get 73.9 MB of archives.
After this operation, 401 MB of additional disk space will be used.
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Get:2 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB]
Get:3 http://deb.debian.org/debian bookworm/main amd64 libcbor0.8 amd64 0.8.0-2+b1 [27.4 kB]
Get:4 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.15-1~deb12u1 [2025 kB]
Get:5 http://deb.debian.org/debian bookworm/main amd64 libfido2-1 amd64 1.12.0-2+b1 [77.2 kB]
Get:6 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u2 [32.6 kB]
Get:7 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u2 [78.7 kB]
Get:8 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B]
Get:9 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u2 [332 kB]
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Get:12 http://deb.debian.org/debian bookworm/main amd64 cp2k-data all 2023.1-2 [20.8 MB]
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Get:14 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB]
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Get:17 http://deb.debian.org/debian bookworm/main amd64 libevent-core-2.1-7 amd64 2.1.12-stable-8 [131 kB]
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Get:19 http://deb.debian.org/debian bookworm/main amd64 libnl-3-200 amd64 3.7.0-0.2+b1 [63.1 kB]
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Get:25 http://deb.debian.org/debian bookworm/main amd64 libnuma1 amd64 2.0.16-1 [21.0 kB]
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Get:28 http://deb.debian.org/debian bookworm/main amd64 libfabric1 amd64 1.17.0-3 [627 kB]
Get:29 http://deb.debian.org/debian bookworm/main amd64 libhwloc15 amd64 2.9.0-1 [154 kB]
Get:30 http://deb.debian.org/debian bookworm/main amd64 libmunge2 amd64 0.5.15-2 [19.5 kB]
Get:31 http://deb.debian.org/debian bookworm/main amd64 libpciaccess0 amd64 0.17-2 [51.4 kB]
Get:32 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB]
Get:33 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB]
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Get:35 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB]
Get:36 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB]
Get:37 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB]
Get:38 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB]
Get:39 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB]
Get:40 http://deb.debian.org/debian bookworm/main amd64 libxnvctrl0 amd64 525.85.05-3~deb12u1 [13.5 kB]
Get:41 http://deb.debian.org/debian bookworm/main amd64 ocl-icd-libopencl1 amd64 2.3.1-1 [43.0 kB]
Get:42 http://deb.debian.org/debian bookworm/main amd64 libhwloc-plugins amd64 2.9.0-1 [17.5 kB]
Get:43 http://deb.debian.org/debian bookworm/main amd64 libpmix2 amd64 4.2.2-1+deb12u1 [622 kB]
Get:44 http://deb.debian.org/debian bookworm/main amd64 libucx0 amd64 1.13.1-1 [860 kB]
Get:45 http://deb.debian.org/debian bookworm/main amd64 libopenmpi3 amd64 4.1.4-3+b1 [2422 kB]
Get:46 http://deb.debian.org/debian bookworm/main amd64 openmpi-common all 4.1.4-3 [167 kB]
Get:47 http://deb.debian.org/debian bookworm/main amd64 openmpi-bin amd64 4.1.4-3+b1 [226 kB]
Get:48 http://deb.debian.org/debian bookworm/main amd64 mpi-default-bin amd64 1.14 [4752 B]
Get:49 http://deb.debian.org/debian bookworm/main amd64 libscalapack-openmpi2.2 amd64 2.2.1-2+b1 [1554 kB]
Get:50 http://deb.debian.org/debian bookworm/main amd64 libelpa19 amd64 2022.11.001-2+deb12u1 [424 kB]
Get:51 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB]
Get:52 http://deb.debian.org/debian bookworm/main amd64 libfftw3-double3 amd64 3.3.10-1 [776 kB]
Get:53 http://deb.debian.org/debian bookworm/main amd64 libint2-2 amd64 2.7.2-1 [4150 kB]
Get:54 http://deb.debian.org/debian bookworm/main amd64 libsymspg1 amd64 2.0.2-1+b3 [188 kB]
Get:55 http://deb.debian.org/debian bookworm/main amd64 libxc9 amd64 5.2.3-1 [3829 kB]
Get:56 http://deb.debian.org/debian bookworm/main amd64 cp2k amd64 2023.1-2 [16.8 MB]
debconf: delaying package configuration, since apt-utils is not installed
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Unpacking openmpi-common (4.1.4-3) ...
Selecting previously unselected package openmpi-bin.
Preparing to unpack .../46-openmpi-bin_4.1.4-3+b1_amd64.deb ...
Unpacking openmpi-bin (4.1.4-3+b1) ...
Selecting previously unselected package mpi-default-bin.
Preparing to unpack .../47-mpi-default-bin_1.14_amd64.deb ...
Unpacking mpi-default-bin (1.14) ...
Selecting previously unselected package libscalapack-openmpi2.2:amd64.
Preparing to unpack .../48-libscalapack-openmpi2.2_2.2.1-2+b1_amd64.deb ...
Unpacking libscalapack-openmpi2.2:amd64 (2.2.1-2+b1) ...
Selecting previously unselected package libelpa19.
Preparing to unpack .../49-libelpa19_2022.11.001-2+deb12u1_amd64.deb ...
Unpacking libelpa19 (2022.11.001-2+deb12u1) ...
Selecting previously unselected package libgomp1:amd64.
Preparing to unpack .../50-libgomp1_12.2.0-14_amd64.deb ...
Unpacking libgomp1:amd64 (12.2.0-14) ...
Selecting previously unselected package libfftw3-double3:amd64.
Preparing to unpack .../51-libfftw3-double3_3.3.10-1_amd64.deb ...
Unpacking libfftw3-double3:amd64 (3.3.10-1) ...
Selecting previously unselected package libint2-2.
Preparing to unpack .../52-libint2-2_2.7.2-1_amd64.deb ...
Unpacking libint2-2 (2.7.2-1) ...
Selecting previously unselected package libsymspg1:amd64.
Preparing to unpack .../53-libsymspg1_2.0.2-1+b3_amd64.deb ...
Unpacking libsymspg1:amd64 (2.0.2-1+b3) ...
Selecting previously unselected package libxc9:amd64.
Preparing to unpack .../54-libxc9_5.2.3-1_amd64.deb ...
Unpacking libxc9:amd64 (5.2.3-1) ...
Selecting previously unselected package cp2k.
Preparing to unpack .../55-cp2k_2023.1-2_amd64.deb ...
Unpacking cp2k (2023.1-2) ...
Setting up libpciaccess0:amd64 (0.17-2) ...
Setting up libxau6:amd64 (1:1.0.9-1) ...
Setting up libkeyutils1:amd64 (1.6.3-2) ...
Setting up libicu72:amd64 (72.1-3) ...
Setting up libcbor0.8:amd64 (0.8.0-2+b1) ...
Setting up libssl3:amd64 (3.0.15-1~deb12u1) ...
Setting up libgomp1:amd64 (12.2.0-14) ...
Setting up libkrb5support0:amd64 (1.20.1-2+deb12u2) ...
Setting up libblas3:amd64 (3.11.0-2) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
Setting up libmunge2 (0.5.15-2) ...
Setting up libx11-data (2:1.8.4-2+deb12u2) ...
Setting up cp2k-data (2023.1-2) ...
Setting up libquadmath0:amd64 (12.2.0-14) ...
Setting up libhwloc15:amd64 (2.9.0-1) ...
Setting up libevent-core-2.1-7:amd64 (2.1.12-stable-8) ...
Setting up libatomic1:amd64 (12.2.0-14) ...
Setting up libk5crypto3:amd64 (1.20.1-2+deb12u2) ...
Setting up libfftw3-double3:amd64 (3.3.10-1) ...
Setting up libgfortran5:amd64 (12.2.0-14) ...
Setting up libnuma1:amd64 (2.0.16-1) ...
Setting up ocl-icd-libopencl1:amd64 (2.3.1-1) ...
Setting up libnl-3-200:amd64 (3.7.0-0.2+b1) ...
Setting up libpsm2-2 (11.2.185-2) ...
Setting up openmpi-common (4.1.4-3) ...
Setting up libint2-2 (2.7.2-1) ...
Setting up libkrb5-3:amd64 (1.20.1-2+deb12u2) ...
Setting up libpsm-infinipath1 (3.3+20.604758e7-6.2) ...
update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode
Setting up libfido2-1:amd64 (1.12.0-2+b1) ...
Setting up libbsd0:amd64 (0.11.7-2) ...
Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ...
Setting up libevent-pthreads-2.1-7:amd64 (2.1.12-stable-8) ...
Setting up libxc9:amd64 (5.2.3-1) ...
Setting up libxdmcp6:amd64 (1:1.1.2-3) ...
Setting up liblapack3:amd64 (3.11.0-2) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
Setting up libxcb1:amd64 (1.15-1) ...
Setting up libedit2:amd64 (3.1-20221030-2) ...
Setting up libsymspg1:amd64 (2.0.2-1+b3) ...
Setting up libnl-route-3-200:amd64 (3.7.0-0.2+b1) ...
Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ...
Setting up libx11-6:amd64 (2:1.8.4-2+deb12u2) ...
Setting up libibverbs1:amd64 (44.0-2) ...
Setting up ibverbs-providers:amd64 (44.0-2) ...
Setting up openssh-client (1:9.2p1-2+deb12u5) ...
Setting up libxext6:amd64 (2:1.3.4-1+b1) ...
Setting up libxnvctrl0:amd64 (525.85.05-3~deb12u1) ...
Setting up librdmacm1:amd64 (44.0-2) ...
Setting up libucx0:amd64 (1.13.1-1) ...
Setting up libhwloc-plugins:amd64 (2.9.0-1) ...
Setting up libfabric1:amd64 (1.17.0-3) ...
Setting up libpmix2:amd64 (4.2.2-1+deb12u1) ...
Setting up libopenmpi3:amd64 (4.1.4-3+b1) ...
Setting up openmpi-bin (4.1.4-3+b1) ...
update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode
update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode
Setting up mpi-default-bin (1.14) ...
Setting up libscalapack-openmpi2.2:amd64 (2.2.1-2+b1) ...
Setting up libelpa19 (2022.11.001-2+deb12u1) ...
Setting up cp2k (2023.1-2) ...
Processing triggers for libc-bin (2.36-9+deb12u10) ...
0m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-y', 'install', 'cp2k']
0m7.9s INFO: Running scripts post_install
0m7.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_install_exceptions']
0m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_install_exceptions']
0m7.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m8.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m8.4s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmph7lviocg to sid
0m8.4s DEBUG: sources.list:
deb http://deb.debian.org/debian/ sid main
0m8.4s INFO: Running scripts pre_distupgrade
0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_allow_unauthenticated']
0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_allow_unauthenticated']
0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_exceptions']
0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_exceptions']
0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386']
0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386']
0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_zz_database-server']
0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_zz_database-server']
0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_zz_upgrade_early']
0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_distupgrade_zz_upgrade_early']
0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'update']
0m10.6s DUMP:
Get:1 http://deb.debian.org/debian sid InRelease [205 kB]
Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.1 MB]
Get:3 http://deb.debian.org/debian sid/main Translation-en [7410 kB]
Fetched 17.8 MB in 2s (10.7 MB/s)
Reading package lists...
0m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'update']
0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-yf', 'dist-upgrade']
0m21.9s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
Calculating upgrade...
The following packages were automatically installed and are no longer required:
libatomic1 libcbor0.8 libicu72 libpsm-infinipath1 libquadmath0 libsymspg1
Use 'sudo apt autoremove' to remove them.
The following packages will be REMOVED:
libdb5.3 libevent-core-2.1-7 libevent-pthreads-2.1-7 libext2fs2 libhogweed6
libint2-2 libnettle8 libopenmpi3 libpmix2 librdmacm1 libssl3
The following NEW packages will be installed:
gcc-14-base libamd-comgr2 libamdhip64-5 libapt-pkg7.0 libassuan9 libcbor0.10
libdb5.3t64 libdrm-amdgpu1 libdrm-common libdrm2 libelf1t64
libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libext2fs2t64 libfuse3-4
libhogweed6t64 libhsa-runtime64-1 libhsakmt1 libibmad5 libibumad3
libint2-2t64 liblastlog2-2 libllvm17t64 libnettle8t64 libnpth0t64
libopenmpi40 libpmix2t64 librdmacm1t64 libsqlite3-0 libssl3t64 libsymspg2
libunistring5 libz3-4 login.defs openssl-provider-legacy sqv
The following packages will be upgraded:
adduser apt base-files base-passwd bash bsdutils coreutils cp2k cp2k-data
dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs
findutils gcc-12-base gpgv grep gzip hostname ibverbs-providers
init-system-helpers libacl1 libatomic1 libattr1 libaudit-common libaudit1
libblas3 libblkid1 libbsd0 libbz2-1.0 libc-bin libc6 libcap-ng0 libcap2
libcom-err2 libcrypt1 libdebconfclient0 libedit2 libelpa19 libfabric1
libffi8 libfftw3-double3 libfido2-1 libgcc-s1 libgcrypt20 libgfortran5
libgmp10 libgomp1 libgpg-error0 libgssapi-krb5-2 libhwloc-plugins libhwloc15
libibverbs1 libicu72 libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 liblapack3 liblz4-1 liblzma5 libmd0 libmount1 libmunge2
libnl-3-200 libnl-route-3-200 libnuma1 libp11-kit0 libpam-modules
libpam-modules-bin libpam-runtime libpam0g libpciaccess0 libpcre2-8-0
libpsm-infinipath1 libpsm2-2 libquadmath0 libscalapack-openmpi2.2
libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2
libsmartcols1 libss2 libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libucx0
libudev1 libuuid1 libx11-6 libx11-data libxau6 libxc9 libxcb1 libxdmcp6
libxext6 libxml2 libxnvctrl0 libxxhash0 libzstd1 login logsave mawk mount
mpi-default-bin ncurses-base ncurses-bin ocl-icd-libopencl1 openmpi-bin
openmpi-common openssh-client passwd perl-base sed sysvinit-utils tar tzdata
usr-is-merged util-linux util-linux-extra zlib1g
128 upgraded, 36 newly installed, 11 to remove and 0 not upgraded.
Need to get 177 MB of archives.
After this operation, 390 MB of additional disk space will be used.
Get:1 http://deb.debian.org/debian sid/main amd64 base-files amd64 13.7 [73.0 kB]
Get:2 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.41-6 [2843 kB]
Get:3 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.41-6 [635 kB]
Get:4 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-19 [49.4 kB]
Get:5 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-19 [72.8 kB]
Get:6 http://deb.debian.org/debian sid/main amd64 debianutils amd64 5.21 [92.1 kB]
Get:7 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.37-2 [1500 kB]
Get:8 http://deb.debian.org/debian sid/main amd64 libcap2 amd64 1:2.75-5 [28.0 kB]
Get:9 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 257.5-2 [453 kB]
Get:10 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.41-4 [110 kB]
Get:11 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.3.0+dfsg-3 [560 kB]
Get:12 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.7+dfsg-1 [304 kB]
Get:13 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.278 [10.5 kB]
Get:14 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.45-1 [298 kB]
Get:15 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.8.1-1 [84.7 kB]
Get:16 http://deb.debian.org/debian sid/main amd64 base-passwd amd64 3.6.7 [53.7 kB]
Get:17 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.17.4-1 [186 kB]
Get:18 http://deb.debian.org/debian sid/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-9 [704 kB]
Get:19 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.2-2 [12.7 kB]
Get:20 http://deb.debian.org/debian sid/main amd64 libcap-ng0 amd64 0.8.5-4+b1 [17.6 kB]
Get:21 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.2-2+b2 [55.1 kB]
Get:22 http://deb.debian.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.38-1 [90.1 kB]
Get:23 http://deb.debian.org/debian sid/main amd64 perl-base amd64 5.40.1-2 [1665 kB]
Get:24 http://deb.debian.org/debian sid/main amd64 debconf all 1.5.91 [121 kB]
Get:25 http://deb.debian.org/debian sid/main amd64 libpam0g amd64 1.7.0-3 [69.7 kB]
Get:26 http://deb.debian.org/debian sid/main amd64 libpam-modules-bin amd64 1.7.0-3 [48.9 kB]
Get:27 http://deb.debian.org/debian sid/main amd64 libpam-modules amd64 1.7.0-3 [177 kB]
Get:28 http://deb.debian.org/debian sid/main amd64 libacl1 amd64 2.3.2-2+b1 [32.9 kB]
Get:29 http://deb.debian.org/debian sid/main amd64 libattr1 amd64 1:2.5.2-3 [22.9 kB]
Get:30 http://deb.debian.org/debian sid/main amd64 libmd0 amd64 1.1.0-2+b1 [36.3 kB]
Get:31 http://deb.debian.org/debian sid/main amd64 libbsd0 amd64 0.12.2-2 [131 kB]
Get:32 http://deb.debian.org/debian sid/main amd64 libsemanage-common all 3.8.1-1 [7812 B]
Get:33 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.8.1-1 [296 kB]
Get:34 http://deb.debian.org/debian sid/main amd64 libbz2-1.0 amd64 1.0.8-6 [37.9 kB]
Get:35 http://deb.debian.org/debian sid/main amd64 libsemanage2 amd64 3.8.1-1 [95.3 kB]
Get:36 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.17.4-1 [1226 kB]
Get:37 http://deb.debian.org/debian sid/main amd64 adduser all 3.150 [187 kB]
Get:38 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.5+20250216-2 [348 kB]
Get:39 http://deb.debian.org/debian sid/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB]
Get:40 http://deb.debian.org/debian sid/main amd64 libcbor0.10 amd64 0.10.2-2 [28.3 kB]
Get:41 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 257.5-2 [151 kB]
Get:42 http://deb.debian.org/debian sid/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1+b1 [88.9 kB]
Get:43 http://deb.debian.org/debian sid/main amd64 libfido2-1 amd64 1.15.0-1+b1 [78.7 kB]
Get:44 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB]
Get:45 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB]
Get:46 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB]
Get:47 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB]
Get:48 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.2-1+b1 [24.3 kB]
Get:49 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-5 [9316 B]
Get:50 http://deb.debian.org/debian sid/main amd64 openssh-client amd64 1:9.9p2-2 [968 kB]
Get:51 http://deb.debian.org/debian sid/main amd64 libssl3t64 amd64 3.5.0-1 [2432 kB]
Get:52 http://deb.debian.org/debian sid/main amd64 openssl-provider-legacy amd64 3.5.0-1 [307 kB]
Get:53 http://deb.debian.org/debian sid/main amd64 coreutils amd64 9.7-1 [3012 kB]
Get:54 http://deb.debian.org/debian sid/main amd64 dash amd64 0.5.12-12 [98.5 kB]
Get:55 http://deb.debian.org/debian sid/main amd64 diffutils amd64 1:3.10-3 [385 kB]
Get:56 http://deb.debian.org/debian sid/main amd64 tar amd64 1.35+dfsg-3.1 [815 kB]
Get:57 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.22.18 [1545 kB]
Get:58 http://deb.debian.org/debian sid/main amd64 findutils amd64 4.10.0-3 [700 kB]
Get:59 http://deb.debian.org/debian sid/main amd64 grep amd64 3.11-4 [431 kB]
Get:60 http://deb.debian.org/debian sid/main amd64 gzip amd64 1.13-1 [138 kB]
Get:61 http://deb.debian.org/debian sid/main amd64 hostname amd64 3.25 [11.0 kB]
Get:62 http://deb.debian.org/debian sid/main amd64 libpam-runtime all 1.7.0-3 [248 kB]
Get:63 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.41-4 [112 kB]
Get:64 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.5+20250216-2 [438 kB]
Get:65 http://deb.debian.org/debian sid/main amd64 sed amd64 4.9-2 [329 kB]
Get:66 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.41-4 [171 kB]
Get:67 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-3 [913 kB]
Get:68 http://deb.debian.org/debian sid/main amd64 liblastlog2-2 amd64 2.41-4 [28.4 kB]
Get:69 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.41-4 [209 kB]
Get:70 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.41-4 [143 kB]
Get:71 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.41-4 [37.6 kB]
Get:72 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.41-4 [1234 kB]
Get:73 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.41-4 [300 kB]
Get:74 http://deb.debian.org/debian sid/main amd64 libnettle8t64 amd64 3.10.1-1 [305 kB]
Get:75 http://deb.debian.org/debian sid/main amd64 libhogweed6t64 amd64 3.10.1-1 [335 kB]
Get:76 http://deb.debian.org/debian sid/main amd64 sqv amd64 1.3.0-1 [661 kB]
Get:77 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-19 [714 kB]
Get:78 http://deb.debian.org/debian sid/main amd64 libxxhash0 amd64 0.8.3-2 [27.1 kB]
Get:79 http://deb.debian.org/debian sid/main amd64 liblz4-1 amd64 1.10.0-4 [63.9 kB]
Get:80 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.8.1-1 [309 kB]
Get:81 http://deb.debian.org/debian sid/main amd64 libapt-pkg7.0 amd64 3.0.0 [1112 kB]
Get:82 http://deb.debian.org/debian sid/main amd64 debian-archive-keyring all 2025.1 [179 kB]
Get:83 http://deb.debian.org/debian sid/main amd64 libseccomp2 amd64 2.6.0-2 [51.7 kB]
Get:84 http://deb.debian.org/debian sid/main amd64 apt amd64 3.0.0 [1450 kB]
Get:85 http://deb.debian.org/debian sid/main amd64 init-system-helpers all 1.68 [38.7 kB]
Get:86 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.5+20250216-2 [273 kB]
Get:87 http://deb.debian.org/debian sid/main amd64 sysvinit-utils amd64 3.14-4 [34.1 kB]
Get:88 http://deb.debian.org/debian sid/main amd64 libint2-2t64 amd64 2.7.2-1.1 [4074 kB]
Get:89 http://deb.debian.org/debian sid/main amd64 cp2k amd64 2025.1-1.1 [19.0 MB]
Get:90 http://deb.debian.org/debian sid/main amd64 cp2k-data all 2025.1-1.1 [32.0 MB]
Get:91 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.1-2 [160 kB]
Get:92 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-19 [836 kB]
Get:93 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.1-2 [2452 kB]
Get:94 http://deb.debian.org/debian sid/main amd64 openmpi-bin amd64 5.0.7-1 [189 kB]
Get:95 http://deb.debian.org/debian sid/main amd64 libscalapack-openmpi2.2 amd64 2.2.2-1 [1594 kB]
Get:96 http://deb.debian.org/debian sid/main amd64 libelpa19 amd64 2022.11.001-3+b1 [436 kB]
Get:97 http://deb.debian.org/debian sid/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB]
Get:98 http://deb.debian.org/debian sid/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB]
Get:99 http://deb.debian.org/debian sid/main amd64 libnl-route-3-200 amd64 3.7.0-2 [182 kB]
Get:100 http://deb.debian.org/debian sid/main amd64 libnl-3-200 amd64 3.7.0-2 [59.4 kB]
Get:101 http://deb.debian.org/debian sid/main amd64 libibverbs1 amd64 56.0-4 [62.4 kB]
Get:102 http://deb.debian.org/debian sid/main amd64 ibverbs-providers amd64 56.0-4 [357 kB]
Get:103 http://deb.debian.org/debian sid/main amd64 libnuma1 amd64 2.0.18-1+b1 [22.3 kB]
Get:104 http://deb.debian.org/debian sid/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB]
Get:105 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB]
Get:106 http://deb.debian.org/debian sid/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.4 [698 kB]
Get:107 http://deb.debian.org/debian sid/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB]
Get:108 http://deb.debian.org/debian sid/main amd64 libllvm17t64 amd64 1:17.0.6-21+b1 [23.6 MB]
Get:109 http://deb.debian.org/debian sid/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB]
Get:110 http://deb.debian.org/debian sid/main amd64 libdrm-common all 2.4.124-2 [8288 B]
Get:111 http://deb.debian.org/debian sid/main amd64 libdrm2 amd64 2.4.124-2 [39.0 kB]
Get:112 http://deb.debian.org/debian sid/main amd64 libdrm-amdgpu1 amd64 2.4.124-2 [22.6 kB]
Get:113 http://deb.debian.org/debian sid/main amd64 libelf1t64 amd64 0.192-4 [189 kB]
Get:114 http://deb.debian.org/debian sid/main amd64 libhsakmt1 amd64 6.2.4+ds-1 [61.1 kB]
Get:115 http://deb.debian.org/debian sid/main amd64 libhsa-runtime64-1 amd64 6.1.2-3 [535 kB]
Get:116 http://deb.debian.org/debian sid/main amd64 libamdhip64-5 amd64 5.7.1-5+b1 [8882 kB]
Get:117 http://deb.debian.org/debian sid/main amd64 libfuse3-4 amd64 3.17.1-1 [97.7 kB]
Get:118 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-19 [137 kB]
Get:119 http://deb.debian.org/debian sid/main amd64 libibumad3 amd64 56.0-4 [29.9 kB]
Get:120 http://deb.debian.org/debian sid/main amd64 libibmad5 amd64 56.0-4 [44.5 kB]
Get:121 http://deb.debian.org/debian sid/main amd64 libucx0 amd64 1.18.1+ds-2+b1 [1196 kB]
Get:122 http://deb.debian.org/debian sid/main amd64 librdmacm1t64 amd64 56.0-4 [70.2 kB]
Get:123 http://deb.debian.org/debian sid/main amd64 libfabric1 amd64 2.0.0-4 [700 kB]
Get:124 http://deb.debian.org/debian sid/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB]
Get:125 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB]
Get:126 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB]
Get:127 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB]
Get:128 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.12-1 [343 kB]
Get:129 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB]
Get:130 http://deb.debian.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB]
Get:131 http://deb.debian.org/debian sid/main amd64 libxnvctrl0 amd64 535.171.04-1+b2 [14.2 kB]
Get:132 http://deb.debian.org/debian sid/main amd64 ocl-icd-libopencl1 amd64 2.3.3-1 [42.9 kB]
Get:133 http://deb.debian.org/debian sid/main amd64 libhwloc15 amd64 2.12.0-1 [164 kB]
Get:134 http://deb.debian.org/debian sid/main amd64 libhwloc-plugins amd64 2.12.0-1 [18.1 kB]
Get:135 http://deb.debian.org/debian sid/main amd64 libmunge2 amd64 0.5.16-1 [19.7 kB]
Get:136 http://deb.debian.org/debian sid/main amd64 libpmix2t64 amd64 5.0.7-1 [660 kB]
Get:137 http://deb.debian.org/debian sid/main amd64 libopenmpi40 amd64 5.0.7-1 [2365 kB]
Get:138 http://deb.debian.org/debian sid/main amd64 openmpi-common all 5.0.7-1 [97.2 kB]
Get:139 http://deb.debian.org/debian sid/main amd64 mpi-default-bin amd64 1.18 [2576 B]
Get:140 http://deb.debian.org/debian sid/main amd64 libfftw3-double3 amd64 3.3.10-2+b1 [781 kB]
Get:141 http://deb.debian.org/debian sid/main amd64 libsymspg2 amd64 2.6.0-1 [194 kB]
Get:142 http://deb.debian.org/debian sid/main amd64 libxc9 amd64 5.2.3-1+b2 [3863 kB]
Get:143 http://deb.debian.org/debian sid/main amd64 logsave amd64 1.47.2-1+b1 [24.2 kB]
Get:144 http://deb.debian.org/debian sid/main amd64 libext2fs2t64 amd64 1.47.2-1+b1 [212 kB]
Get:145 http://deb.debian.org/debian sid/main amd64 e2fsprogs amd64 1.47.2-1+b1 [590 kB]
Get:146 http://deb.debian.org/debian sid/main amd64 mount amd64 2.41-4 [162 kB]
Get:147 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.51-4 [82.1 kB]
Get:148 http://deb.debian.org/debian sid/main amd64 libassuan9 amd64 3.0.2-2 [61.5 kB]
Get:149 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.11.0-7 [843 kB]
Get:150 http://deb.debian.org/debian sid/main amd64 libnpth0t64 amd64 1.8-2 [22.9 kB]
Get:151 http://deb.debian.org/debian sid/main amd64 gpgv amd64 2.4.7-13 [252 kB]
Get:152 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.3-2 [477 kB]
Get:153 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.8-2 [109 kB]
Get:154 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB]
Get:155 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB]
Get:156 http://deb.debian.org/debian sid/main amd64 usr-is-merged all 39+nmu2 [5936 B]
Get:157 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20250131-1 [141 kB]
Get:158 http://deb.debian.org/debian sid/main amd64 tzdata all 2025b-1 [259 kB]
Get:159 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-19 [9308 B]
Get:160 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14.2.0-19 [145 kB]
Get:161 http://deb.debian.org/debian sid/main amd64 gcc-12-base amd64 12.4.0-5 [43.9 kB]
Get:162 http://deb.debian.org/debian sid/main amd64 libicu72 amd64 72.1-6 [9421 kB]
Get:163 http://deb.debian.org/debian sid/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.4 [170 kB]
Get:164 http://deb.debian.org/debian sid/main amd64 libss2 amd64 1.47.2-1+b1 [29.0 kB]
debconf: delaying package configuration, since apt-utils is not installed
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update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode
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dpkg: libdb5.3:amd64: dependency problems, but removing anyway as you requested:
libpam-modules:amd64 depends on libdb5.3.
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dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty
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Unpacking libss2:amd64 (1.47.2-1+b1) over (1.47.0-2) ...
dpkg: warning: unable to delete old directory '/lib/x86_64-linux-gnu': Directory not empty
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Setting up libxau6:amd64 (1:1.0.11-1) ...
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Setting up libkeyutils1:amd64 (1.6.3-5) ...
Setting up libxcb1:amd64 (1.17.0-2+b1) ...
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Setting up libcbor0.10:amd64 (0.10.2-2) ...
Setting up libedit2:amd64 (3.1-20250104-1) ...
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Setting up libkrb5support0:amd64 (1.21.3-5) ...
Setting up gcc-12-base:amd64 (12.4.0-5) ...
Setting up tzdata (2025b-1) ...
Current default time zone: 'Etc/UTC'
Local time is now: Fri Apr 11 15:56:34 UTC 2025.
Universal Time is now: Fri Apr 11 15:56:34 UTC 2025.
Run 'dpkg-reconfigure tzdata' if you wish to change it.
Setting up libsymspg2:amd64 (2.6.0-1) ...
Setting up libz3-4:amd64 (4.13.3-1) ...
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Setting up libhwloc15:amd64 (2.12.0-1) ...
Setting up libatomic1:amd64 (14.2.0-19) ...
Setting up libss2:amd64 (1.47.2-1+b1) ...
Setting up libk5crypto3:amd64 (1.21.3-5) ...
Setting up libfftw3-double3:amd64 (3.3.10-2+b1) ...
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Setting up libpsm-infinipath1 (3.3+20.604758e7-6.4) ...
update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode
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Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b1) ...
Setting up libxext6:amd64 (2:1.3.4-1+b3) ...
Setting up e2fsprogs (1.47.2-1+b1) ...
Installing new version of config file /etc/cron.d/e2scrub_all ...
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Setting up libnl-route-3-200:amd64 (3.7.0-2) ...
Setting up libxnvctrl0:amd64 (535.171.04-1+b2) ...
Setting up libllvm17t64:amd64 (1:17.0.6-21+b1) ...
Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ...
Setting up libdrm2:amd64 (2.4.124-2) ...
Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ...
Setting up libdrm-amdgpu1:amd64 (2.4.124-2) ...
Setting up libibverbs1:amd64 (56.0-4) ...
Setting up ibverbs-providers:amd64 (56.0-4) ...
Setting up openssh-client (1:9.9p2-2) ...
Installing new version of config file /etc/ssh/ssh_config ...
Setting up libhwloc-plugins:amd64 (2.12.0-1) ...
Setting up libpmix2t64:amd64 (5.0.7-1) ...
Setting up librdmacm1t64:amd64 (56.0-4) ...
Setting up libhsakmt1:amd64 (6.2.4+ds-1) ...
Setting up libfabric1:amd64 (2.0.0-4) ...
Setting up libhsa-runtime64-1:amd64 (6.1.2-3) ...
Setting up libamdhip64-5 (5.7.1-5+b1) ...
Setting up libucx0:amd64 (1.18.1+ds-2+b1) ...
Setting up libopenmpi40:amd64 (5.0.7-1) ...
Setting up openmpi-bin (5.0.7-1) ...
update-alternatives: warning: forcing reinstallation of alternative /usr/bin/mpirun.openmpi because link group mpirun is broken
update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) doesn't exist
Setting up mpi-default-bin (1.18) ...
Setting up libscalapack-openmpi2.2:amd64 (2.2.2-1) ...
Setting up libelpa19 (2022.11.001-3+b1) ...
Setting up cp2k (2025.1-1.1) ...
Processing triggers for libc-bin (2.41-6) ...
Processing triggers for debianutils (5.21) ...
0m21.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-yf', 'dist-upgrade']
0m21.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'sh', '-c', 'apt-cache dumpavail | md5sum']
0m22.5s DUMP:
13af86267cd05447d464a7126e2b3e4d -
0m22.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'sh', '-c', 'apt-cache dumpavail | md5sum']
0m22.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'show', '--no-all-versions', 'cp2k']
0m22.6s DUMP:
Package: cp2k
Version: 2025.1-1.1
Installed-Size: 61552
Maintainer: Debichem Team <debichem-devel@lists.alioth.debian.org>
Architecture: amd64
Depends: cp2k-data (= 2025.1-1.1), libblas3 | libblas.so.3, libc6 (>= 2.35), libelpa19 (>= 2022.11.001), libfftw3-double3 (>= 3.3.10), libgcc-s1 (>= 4.0), libgfortran5 (>= 10), libgomp1 (>= 6), libint2-2t64, liblapack3 | liblapack.so.3, libopenmpi40 (>= 5.0.7), libscalapack-openmpi2.2 (>= 2.2.2), libsymspg2 (>= 2.6.0), libxc9 (>= 5.1.6)
Description-en: Ab Initio Molecular Dynamics
CP2K is a program to perform simulations of solid state, liquid, molecular and
biological systems. It is especially aimed at massively parallel and linear
scaling electronic structure methods and state-of-the-art ab-initio molecular
dynamics (AIMD) simulations.
.
CP2K is optimized for the mixed Gaussian and Plane-Waves (GPW) method based on
pseudopotentials, but is able to run all-electron or pure plane-wave/Gaussian
calculations as well. Features include:
.
Ab-initio Electronic Structure Theory Methods using the QUICKSTEP module:
.
* Density-Functional Theory (DFT) energies and forces
* Hartree-Fock (HF) energies and forces
* Moeller-Plesset 2nd order perturbation theory (MP2) energies and forces
* Random Phase Approximation (RPA) energies
* Gas phase or Periodic boundary conditions (PBC)
* Basis sets include various standard Gaussian-Type Orbitals (GTOs), Pseudo-
potential plane-waves (PW), and a mixed Gaussian and (augmented) plane wave
approach (GPW/GAPW)
* Norm-conserving, seperable Goedecker-Teter-Hutter (GTH) and non-linear core
corrected (NLCC) pseudopotentials, or all-electron calculations
* Local Density Approximation (LDA) XC functionals including SVWN3, SVWN5,
PW92 and PADE
* Gradient-corrected (GGA) XC functionals including BLYP, BP86, PW91, PBE and
HCTH120 as well as the meta-GGA XC functional TPSS
* Hybrid XC functionals with exact Hartree-Fock Exchange (HFX) including
B3LYP, PBE0 and MCY3
* Double-hybrid XC functionals including B2PLYP and B2GPPLYP
* Additional XC functionals via LibXC
* Dispersion corrections via DFT-D2 and DFT-D3 pair-potential models
* Non-local van der Waals corrections for XC functionals including B88-vdW,
PBE-vdW and B97X-D
* DFT+U (Hubbard) correction
* Density-Fitting for DFT via Bloechl or Density Derived Atomic Point Charges
(DDAPC) charges, for HFX via Auxiliary Density Matrix Methods (ADMM) and
for MP2/RPA via Resolution-of-identity (RI)
* Sparse matrix and prescreening techniques for linear-scaling Kohn-Sham (KS)
matrix computation
* Orbital Transformation (OT) or Direct Inversion of the iterative subspace
(DIIS) self-consistent field (SCF) minimizer
* Local Resolution-of-Identity Projector Augmented Wave method (LRIGPW)
* Absolutely Localized Molecular Orbitals SCF (ALMO-SCF) energies for linear
scaling of molecular systems
* Excited states via time-dependent density-functional perturbation theory
(TDDFPT)
.
Ab-initio Molecular Dynamics:
.
* Born-Oppenheimer Molecular Dynamics (BOMD)
* Ehrenfest Molecular Dynamics (EMD)
* PS extrapolation of initial wavefunction
* Time-reversible Always Stable Predictor-Corrector (ASPC) integrator
* Approximate Car-Parrinello like Langevin Born-Oppenheimer Molecular Dynamics
(Second-Generation Car-Parrinello Molecular Dynamics (SGCP))
.
Mixed quantum-classical (QM/MM) simulations:
.
* Real-space multigrid approach for the evaluation of the Coulomb
interactions between the QM and the MM part
* Linear-scaling electrostatic coupling treating of periodic boundary
conditions
* Adaptive QM/MM
.
Further Features include:
.
* Single-point energies, geometry optimizations and frequency calculations
* Several nudged-elastic band (NEB) algorithms (B-NEB, IT-NEB, CI-NEB, D-NEB)
for minimum energy path (MEP) calculations
* Global optimization of geometries
* Solvation via the Self-Consistent Continuum Solvation (SCCS) model
* Semi-Empirical calculations including the AM1, RM1, PM3, MNDO, MNDO-d, PNNL
and PM6 parametrizations, density-functional tight-binding (DFTB) and
self-consistent-polarization tight-binding (SCP-TB), with or without
periodic boundary conditions
* Classical Molecular Dynamics (MD) simulations in microcanonical ensemble
(NVE) or canonical ensmble (NVT) with Nose-Hover and canonical sampling
through velocity rescaling (CSVR) thermostats
* Metadynamics including well-tempered Metadynamics for Free Energy
calculations
* Classical Force-Field (MM) simulations
* Monte-Carlo (MC) KS-DFT simulations
* Static (e.g. spectra) and dynamical (e.g. diffusion) properties
* ATOM code for pseudopotential generation
* Integrated molecular basis set optimization
.
CP2K does not implement conventional Car-Parrinello Molecular Dynamics (CPMD).
Description-md5: 37c89754b1cfba92136be3fd32ced61d
Homepage: http://www.cp2k.org
Section: science
Priority: optional
Filename: pool/main/c/cp2k/cp2k_2025.1-1.1_amd64.deb
Size: 18964392
MD5sum: 3ad86a3e1d8911aa16043cd20cf64e99
SHA256: 1dc0614c812d75c04d006eacc73d684c4904084f11f258b69b83c587d2bc275d
0m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'show', '--no-all-versions', 'cp2k']
0m22.6s INFO: apt-cache knows about the following packages: cp2k
0m22.6s INFO: Running scripts pre_install
0m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_database-server']
0m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_database-server']
0m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_exceptions']
0m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_exceptions']
0m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_extras']
0m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_extras']
0m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture']
0m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture']
0m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy']
0m22.7s 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:
0m22.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy']
0m22.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy', 'cp2k']
0m22.7s DUMP:
cp2k:
Installed: 2025.1-1.1
Candidate: 2025.1-1.1
Version table:
*** 2025.1-1.1 500
500 http://deb.debian.org/debian sid/main amd64 Packages
100 /var/lib/dpkg/status
0m22.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy', 'cp2k']
0m22.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-y', 'install', 'cp2k']
0m22.9s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
cp2k is already the newest version (2025.1-1.1).
The following packages were automatically installed and are no longer required:
libatomic1 libcbor0.8 libicu72 libpsm-infinipath1 libquadmath0 libsymspg1
Use 'sudo apt autoremove' to remove them.
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
0m22.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-y', 'install', 'cp2k']
0m22.9s INFO: Running scripts post_install
0m22.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_install_exceptions']
0m22.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_install_exceptions']
0m22.9s INFO: Running scripts post_distupgrade
0m22.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_base_cleanup']
0m22.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_base_cleanup']
0m22.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_exceptions']
0m22.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_exceptions']
0m22.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_force-unsafe-io']
0m22.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_force-unsafe-io']
0m22.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_squeeze-backports']
0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_squeeze-backports']
0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_zz_backports']
0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_distupgrade_zz_backports']
0m23.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m23.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m23.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m23.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m23.7s INFO: Running scripts pre_install
0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_database-server']
0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_database-server']
0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_exceptions']
0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_exceptions']
0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_extras']
0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_extras']
0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture']
0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture']
0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_install_foreign_architecture_i386']
0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy']
0m23.7s 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:
0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy']
0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy', 'cp2k']
0m23.8s DUMP:
cp2k:
Installed: 2025.1-1.1
Candidate: 2025.1-1.1
Version table:
*** 2025.1-1.1 500
500 http://deb.debian.org/debian sid/main amd64 Packages
100 /var/lib/dpkg/status
0m23.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-cache', 'policy', 'cp2k']
0m23.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-y', 'install', 'cp2k=2025.1-1.1']
0m24.0s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
cp2k is already the newest version (2025.1-1.1).
The following packages were automatically installed and are no longer required:
libatomic1 libcbor0.8 libicu72 libpsm-infinipath1 libquadmath0 libsymspg1
Use 'sudo apt autoremove' to remove them.
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
0m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', '-y', 'install', 'cp2k=2025.1-1.1']
0m24.0s INFO: Running scripts post_install
0m24.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_install_exceptions']
0m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_install_exceptions']
0m24.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m24.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m24.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmph7lviocg', '-ac', '--ignore-obsolete']
0m26.6s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmph7lviocg', '-ac', '--ignore-obsolete']
0m26.6s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate']
0m26.6s DUMP:
0.15.6
0m26.6s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate']
0m26.6s INFO: Running adequate version 0.15.6 now.
0m26.6s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'cp2k']
0m26.7s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'cp2k']
0m26.7s INFO: Running scripts pre_remove
0m26.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_40_find_missing_md5sums']
0m26.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_40_find_missing_md5sums']
0m26.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles']
0m26.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles']
0m26.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_40_find_unowned_lib_links']
0m27.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_40_find_unowned_lib_links']
0m27.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_50_find_bad_permissions']
0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_50_find_bad_permissions']
0m27.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_50_find_missing_copyright']
0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_50_find_missing_copyright']
0m27.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_exceptions']
0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/pre_remove_exceptions']
0m27.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m27.8s DUMP:
install ok installed adduser adduser 3.150
install ok installed apt apt 3.0.0
install ok installed base-files base-files 13.7
install ok installed base-passwd base-passwd 3.6.7
install ok installed bash bash 5.2.37-2
install ok installed bsdutils bsdutils 1:2.41-4
install ok installed coreutils coreutils 9.7-1
install ok installed cp2k cp2k 2025.1-1.1
install ok installed cp2k-data cp2k-data 2025.1-1.1
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 5.21
install ok installed diffutils diffutils 1:3.10-3
install ok installed dpkg dpkg 1.22.18
install ok installed e2fsprogs e2fsprogs 1.47.2-1+b1
install ok installed findutils findutils 4.10.0-3
install ok installed gcc-12-base:amd64 gcc-12-base 12.4.0-5
install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-19
install ok installed gpgv gpgv 2.4.7-13
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 ibverbs-providers:amd64 ibverbs-providers 56.0-4
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 libamd-comgr2:amd64 libamd-comgr2 6.0+git20231212.4510c28+dfsg-3+b2
install ok installed libamdhip64-5 libamdhip64-5 5.7.1-5+b1
install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1
install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.0.0
install ok installed libassuan9:amd64 libassuan9 3.0.2-2
install ok installed libatomic1:amd64 libatomic1 14.2.0-19
install ok installed libattr1:amd64 libattr1 1:2.5.2-3
install ok installed libaudit-common libaudit-common 1:4.0.2-2
install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2+b2
install ok installed libblas3:amd64 libblas3 3.12.1-2
install ok installed libblkid1:amd64 libblkid1 2.41-4
install ok installed libbsd0:amd64 libbsd0 0.12.2-2
install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6
install ok installed libc-bin libc-bin 2.41-6
install ok installed libc6:amd64 libc6 2.41-6
install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b1
install ok installed libcap2:amd64 libcap2 1:2.75-5
install ok installed libcbor0.10:amd64 libcbor0.10 0.10.2-2
install ok installed libcbor0.8:amd64 libcbor0.8 0.8.0-2+b1
install ok installed libcom-err2:amd64 libcom-err2 1.47.2-1+b1
install ok installed libcrypt1:amd64 libcrypt1 1:4.4.38-1
install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9
install ok installed libdebconfclient0:amd64 libdebconfclient0 0.278
install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.124-2
install ok installed libdrm-common libdrm-common 2.4.124-2
install ok installed libdrm2:amd64 libdrm2 2.4.124-2
install ok installed libedit2:amd64 libedit2 3.1-20250104-1
install ok installed libelf1t64:amd64 libelf1t64 0.192-4
install ok installed libelpa19 libelpa19 2022.11.001-3+b1
install ok installed libevent-core-2.1-7t64:amd64 libevent-core-2.1-7t64 2.1.12-stable-10+b1
install ok installed libevent-pthreads-2.1-7t64:amd64 libevent-pthreads-2.1-7t64 2.1.12-stable-10+b1
install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2-1+b1
install ok installed libfabric1:amd64 libfabric1 2.0.0-4
install ok installed libffi8:amd64 libffi8 3.4.7-1
install ok installed libfftw3-double3:amd64 libfftw3-double3 3.3.10-2+b1
install ok installed libfido2-1:amd64 libfido2-1 1.15.0-1+b1
install ok installed libfuse3-4:amd64 libfuse3-4 3.17.1-1
install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-19
install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-7
install ok installed libgfortran5:amd64 libgfortran5 14.2.0-19
install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3
install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u4
install ok installed libgomp1:amd64 libgomp1 14.2.0-19
install ok installed libgpg-error0:amd64 libgpg-error0 1.51-4
install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-5
install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.1-1
install ok installed libhsa-runtime64-1:amd64 libhsa-runtime64-1 6.1.2-3
install ok installed libhsakmt1:amd64 libhsakmt1 6.2.4+ds-1
install ok installed libhwloc-plugins:amd64 libhwloc-plugins 2.12.0-1
install ok installed libhwloc15:amd64 libhwloc15 2.12.0-1
install ok installed libibmad5:amd64 libibmad5 56.0-4
install ok installed libibumad3:amd64 libibumad3 56.0-4
install ok installed libibverbs1:amd64 libibverbs1 56.0-4
install ok installed libicu72:amd64 libicu72 72.1-6
install ok installed libidn2-0:amd64 libidn2-0 2.3.8-2
install ok installed libint2-2t64 libint2-2t64 2.7.2-1.1
install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-5
install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-5
install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-5
install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-5
install ok installed liblapack3:amd64 liblapack3 3.12.1-2
install ok installed liblastlog2-2:amd64 liblastlog2-2 2.41-4
install ok installed libllvm17t64:amd64 libllvm17t64 1:17.0.6-21+b1
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 2.41-4
install ok installed libmunge2:amd64 libmunge2 0.5.16-1
install ok installed libnettle8t64:amd64 libnettle8t64 3.10.1-1
install ok installed libnl-3-200:amd64 libnl-3-200 3.7.0-2
install ok installed libnl-route-3-200:amd64 libnl-route-3-200 3.7.0-2
install ok installed libnpth0t64:amd64 libnpth0t64 1.8-2
install ok installed libnuma1:amd64 libnuma1 2.0.18-1+b1
install ok installed libopenmpi40:amd64 libopenmpi40 5.0.7-1
install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-3
install ok installed libpam-modules:amd64 libpam-modules 1.7.0-3
install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-3
install ok installed libpam-runtime libpam-runtime 1.7.0-3
install ok installed libpam0g:amd64 libpam0g 1.7.0-3
install ok installed libpciaccess0:amd64 libpciaccess0 0.17-3+b3
install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.45-1
install ok installed libpmix2t64:amd64 libpmix2t64 5.0.7-1
install ok installed libpsm-infinipath1 libpsm-infinipath1 3.3+20.604758e7-6.4
install ok installed libpsm2-2 libpsm2-2 11.2.185-2.1
install ok installed libquadmath0:amd64 libquadmath0 14.2.0-19
install ok installed librdmacm1t64:amd64 librdmacm1t64 56.0-4
install ok installed libscalapack-openmpi2.2:amd64 libscalapack-openmpi2.2 2.2.2-1
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 2.41-4
install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-3
install ok installed libss2:amd64 libss2 1.47.2-1+b1
install ok installed libssl3t64:amd64 libssl3t64 3.5.0-1
install ok installed libstdc++6:amd64 libstdc++6 14.2.0-19
install ok installed libsymspg1:amd64 libsymspg1 2.0.2-1+b3
install ok installed libsymspg2:amd64 libsymspg2 2.6.0-1
install ok installed libsystemd0:amd64 libsystemd0 257.5-2
install ok installed libtasn1-6:amd64 libtasn1-6 4.20.0-2
install ok installed libtinfo6:amd64 libtinfo6 6.5+20250216-2
install ok installed libucx0:amd64 libucx0 1.18.1+ds-2+b1
install ok installed libudev1:amd64 libudev1 257.5-2
install ok installed libunistring2:amd64 libunistring2 1.0-2
install ok installed libunistring5:amd64 libunistring5 1.3-2
install ok installed libuuid1:amd64 libuuid1 2.41-4
install ok installed libx11-6:amd64 libx11-6 2:1.8.12-1
install ok installed libx11-data libx11-data 2:1.8.12-1
install ok installed libxau6:amd64 libxau6 1:1.0.11-1
install ok installed libxc9:amd64 libxc9 5.2.3-1+b2
install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b1
install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-1
install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b3
install ok installed libxml2:amd64 libxml2 2.12.7+dfsg+really2.9.14-0.4
install ok installed libxnvctrl0:amd64 libxnvctrl0 535.171.04-1+b2
install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2
install ok installed libz3-4:amd64 libz3-4 4.13.3-1
install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-1
install ok installed login login 1:4.16.0-2+really2.41-4
install ok installed login.defs login.defs 1:4.17.4-1
install ok installed logsave logsave 1.47.2-1+b1
install ok installed mawk mawk 1.3.4.20250131-1
install ok installed mount mount 2.41-4
install ok installed mpi-default-bin mpi-default-bin 1.18
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 ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.3.3-1
install ok installed openmpi-bin openmpi-bin 5.0.7-1
install ok installed openmpi-common openmpi-common 5.0.7-1
install ok installed openssh-client openssh-client 1:9.9p2-2
install ok installed openssl-provider-legacy openssl-provider-legacy 3.5.0-1
install ok installed passwd passwd 1:4.17.4-1
install ok installed perl-base perl-base 5.40.1-2
install ok installed sed sed 4.9-2
install ok installed sqv sqv 1.3.0-1
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-1
install ok installed usr-is-merged usr-is-merged 39+nmu2
install ok installed util-linux util-linux 2.41-4
install ok installed util-linux-extra util-linux-extra 2.41-4
install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1
0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n']
0m27.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'remove', '--allow-remove-essential', 'cp2k-data', 'ibverbs-providers:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libcbor0.10:amd64', 'libcbor0.8:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libelpa19', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfido2-1:amd64', 'libfuse3-4:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libint2-2t64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libscalapack-openmpi2.2:amd64', 'libsymspg1:amd64', 'libsymspg2:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxc9:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'mpi-default-bin', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'cp2k']
0m28.5s DUMP:
Reading package lists...
Building dependency tree...
Reading state information...
The following packages will be REMOVED:
cp2k cp2k-data ibverbs-providers libamd-comgr2 libamdhip64-5 libatomic1
libblas3 libcbor0.10 libcbor0.8 libdrm-amdgpu1 libdrm-common libdrm2
libedit2 libelf1t64 libelpa19 libevent-core-2.1-7t64
libevent-pthreads-2.1-7t64 libfabric1 libfftw3-double3 libfido2-1 libfuse3-4
libgfortran5 libgomp1 libgssapi-krb5-2 libhsa-runtime64-1 libhsakmt1
libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libicu72
libint2-2t64 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3
libllvm17t64 libmunge2 libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi40
libpciaccess0 libpmix2t64 libpsm-infinipath1 libpsm2-2 libquadmath0
librdmacm1t64 libscalapack-openmpi2.2 libsymspg1 libsymspg2 libucx0 libx11-6
libx11-data libxau6 libxc9 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0
libz3-4 mpi-default-bin ocl-icd-libopencl1 openmpi-bin openmpi-common
openssh-client
0 upgraded, 0 newly installed, 69 to remove and 0 not upgraded.
After this operation, 768 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 ... 10849 files and directories currently installed.)
Removing cp2k (2025.1-1.1) ...
Removing cp2k-data (2025.1-1.1) ...
Removing libelpa19 (2022.11.001-3+b1) ...
Removing libscalapack-openmpi2.2:amd64 (2.2.2-1) ...
Removing mpi-default-bin (1.18) ...
Removing openmpi-bin (5.0.7-1) ...
Removing libopenmpi40:amd64 (5.0.7-1) ...
Removing libucx0:amd64 (1.18.1+ds-2+b1) ...
Removing libfabric1:amd64 (2.0.0-4) ...
Removing ibverbs-providers:amd64 (56.0-4) ...
Removing libamdhip64-5 (5.7.1-5+b1) ...
Removing libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ...
Removing libatomic1:amd64 (14.2.0-19) ...
Removing liblapack3:amd64 (3.12.1-2) ...
Removing libblas3:amd64 (3.12.1-2) ...
Removing openssh-client (1:9.9p2-2) ...
Removing libfido2-1:amd64 (1.15.0-1+b1) ...
Removing libcbor0.10:amd64 (0.10.2-2) ...
Removing libcbor0.8:amd64 (0.8.0-2+b1) ...
Removing libhsa-runtime64-1:amd64 (6.1.2-3) ...
Removing libhsakmt1:amd64 (6.2.4+ds-1) ...
Removing libdrm-amdgpu1:amd64 (2.4.124-2) ...
Removing libdrm2:amd64 (2.4.124-2) ...
Removing libdrm-common (2.4.124-2) ...
Removing libllvm17t64:amd64 (1:17.0.6-21+b1) ...
Removing libedit2:amd64 (3.1-20250104-1) ...
Removing libelf1t64:amd64 (0.192-4) ...
Removing libpmix2t64:amd64 (5.0.7-1) ...
Removing libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b1) ...
Removing libevent-core-2.1-7t64:amd64 (2.1.12-stable-10+b1) ...
Removing libfftw3-double3:amd64 (3.3.10-2+b1) ...
Removing libfuse3-4:amd64 (3.17.1-1) ...
Removing libxc9:amd64 (5.2.3-1+b2) ...
Removing libgfortran5:amd64 (14.2.0-19) ...
Removing libsymspg1:amd64 (2.0.2-1+b3) ...
Removing libgomp1:amd64 (14.2.0-19) ...
Removing libgssapi-krb5-2:amd64 (1.21.3-5) ...
Removing libhwloc-plugins:amd64 (2.12.0-1) ...
Removing libhwloc15:amd64 (2.12.0-1) ...
Removing libibmad5:amd64 (56.0-4) ...
Removing libibumad3:amd64 (56.0-4) ...
Removing librdmacm1t64:amd64 (56.0-4) ...
Removing libibverbs1:amd64 (56.0-4) ...
Removing libicu72:amd64 (72.1-6) ...
Removing libint2-2t64 (2.7.2-1.1) ...
Removing libkrb5-3:amd64 (1.21.3-5) ...
Removing libk5crypto3:amd64 (1.21.3-5) ...
Removing libkeyutils1:amd64 (1.6.3-5) ...
Removing libkrb5support0:amd64 (1.21.3-5) ...
Removing libmunge2:amd64 (0.5.16-1) ...
Removing libnl-route-3-200:amd64 (3.7.0-2) ...
Removing libnl-3-200:amd64 (3.7.0-2) ...
Removing libpsm2-2 (11.2.185-2.1) ...
Removing libnuma1:amd64 (2.0.18-1+b1) ...
Removing libpciaccess0:amd64 (0.17-3+b3) ...
Removing libpsm-infinipath1 (3.3+20.604758e7-6.4) ...
update-alternatives: warning: alternative /usr/lib/libpsm1/libpsm_infinipath.so.1.16 (part of link group libpsm_infinipath.so.1) doesn't exist; removing from list of alternatives
update-alternatives: warning: /etc/alternatives/libpsm_infinipath.so.1 is dangling; it will be updated with best choice
Removing libquadmath0:amd64 (14.2.0-19) ...
Removing libsymspg2:amd64 (2.6.0-1) ...
Removing libxnvctrl0:amd64 (535.171.04-1+b2) ...
Removing libxext6:amd64 (2:1.3.4-1+b3) ...
Removing libx11-6:amd64 (2:1.8.12-1) ...
Removing libx11-data (2:1.8.12-1) ...
Removing libxcb1:amd64 (1.17.0-2+b1) ...
Removing libxau6:amd64 (1:1.0.11-1) ...
Removing libxdmcp6:amd64 (1:1.1.5-1) ...
Removing libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.4) ...
Removing libz3-4:amd64 (4.13.3-1) ...
Removing ocl-icd-libopencl1:amd64 (2.3.3-1) ...
Removing openmpi-common (5.0.7-1) ...
Processing triggers for libc-bin (2.41-6) ...
0m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'remove', '--allow-remove-essential', 'cp2k-data', 'ibverbs-providers:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libcbor0.10:amd64', 'libcbor0.8:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libelpa19', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfido2-1:amd64', 'libfuse3-4:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libint2-2t64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libscalapack-openmpi2.2:amd64', 'libsymspg1:amd64', 'libsymspg2:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxc9:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'mpi-default-bin', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'cp2k']
0m28.5s INFO: Running scripts post_remove
0m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_remove_exceptions']
0m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_remove_exceptions']
0m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--purge', 'cp2k-data', 'ibverbs-providers:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libcbor0.10:amd64', 'libcbor0.8:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libelpa19', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfido2-1:amd64', 'libfuse3-4:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libint2-2t64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libscalapack-openmpi2.2:amd64', 'libsymspg1:amd64', 'libsymspg2:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxc9:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'mpi-default-bin', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client']
0m28.6s DUMP:
dpkg: warning: ignoring request to remove cp2k-data which isn't installed
(Reading database ... 5427 files and directories currently installed.)
Purging configuration files for ibverbs-providers:amd64 (56.0-4) ...
dpkg: warning: ignoring request to remove libamd-comgr2 which isn't installed
dpkg: warning: ignoring request to remove libamdhip64-5 which isn't installed
dpkg: warning: ignoring request to remove libatomic1 which isn't installed
dpkg: warning: ignoring request to remove libblas3 which isn't installed
dpkg: warning: ignoring request to remove libcbor0.10 which isn't installed
dpkg: warning: ignoring request to remove libcbor0.8 which isn't installed
dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed
dpkg: warning: ignoring request to remove libdrm-common which isn't installed
dpkg: warning: ignoring request to remove libdrm2 which isn't installed
dpkg: warning: ignoring request to remove libedit2 which isn't installed
dpkg: warning: ignoring request to remove libelf1t64 which isn't installed
dpkg: warning: ignoring request to remove libelpa19 which isn't installed
dpkg: warning: ignoring request to remove libevent-core-2.1-7t64 which isn't installed
dpkg: warning: ignoring request to remove libevent-pthreads-2.1-7t64 which isn't installed
dpkg: warning: ignoring request to remove libfabric1 which isn't installed
dpkg: warning: ignoring request to remove libfftw3-double3 which isn't installed
dpkg: warning: ignoring request to remove libfido2-1 which isn't installed
dpkg: warning: ignoring request to remove libfuse3-4 which isn't installed
dpkg: warning: ignoring request to remove libgfortran5 which isn't installed
dpkg: warning: ignoring request to remove libgomp1 which isn't installed
Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-5) ...
dpkg: warning: ignoring request to remove libhsa-runtime64-1 which isn't installed
dpkg: warning: ignoring request to remove libhsakmt1 which isn't installed
dpkg: warning: ignoring request to remove libhwloc-plugins which isn't installed
dpkg: warning: ignoring request to remove libhwloc15 which isn't installed
dpkg: warning: ignoring request to remove libibmad5 which isn't installed
dpkg: warning: ignoring request to remove libibumad3 which isn't installed
dpkg: warning: ignoring request to remove libibverbs1 which isn't installed
dpkg: warning: ignoring request to remove libicu72 which isn't installed
dpkg: warning: ignoring request to remove libint2-2t64 which isn't installed
dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed
dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed
dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed
dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed
dpkg: warning: ignoring request to remove liblapack3 which isn't installed
dpkg: warning: ignoring request to remove libllvm17t64 which isn't installed
dpkg: warning: ignoring request to remove libmunge2 which isn't installed
Purging configuration files for libnl-3-200:amd64 (3.7.0-2) ...
dpkg: warning: ignoring request to remove libnl-route-3-200 which isn't installed
dpkg: warning: ignoring request to remove libnuma1 which isn't installed
dpkg: warning: ignoring request to remove libopenmpi40 which isn't installed
dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed
dpkg: warning: ignoring request to remove libpmix2t64 which isn't installed
Purging configuration files for libpsm-infinipath1 (3.3+20.604758e7-6.4) ...
dpkg: warning: ignoring request to remove libpsm2-2 which isn't installed
dpkg: warning: ignoring request to remove libquadmath0 which isn't installed
dpkg: warning: ignoring request to remove librdmacm1t64 which isn't installed
dpkg: warning: ignoring request to remove libscalapack-openmpi2.2 which isn't installed
dpkg: warning: ignoring request to remove libsymspg1 which isn't installed
dpkg: warning: ignoring request to remove libsymspg2 which isn't installed
dpkg: warning: ignoring request to remove libucx0 which isn't installed
dpkg: warning: ignoring request to remove libx11-6 which isn't installed
dpkg: warning: ignoring request to remove libx11-data which isn't installed
dpkg: warning: ignoring request to remove libxau6 which isn't installed
dpkg: warning: ignoring request to remove libxc9 which isn't installed
dpkg: warning: ignoring request to remove libxcb1 which isn't installed
dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed
dpkg: warning: ignoring request to remove libxext6 which isn't installed
dpkg: warning: ignoring request to remove libxml2 which isn't installed
dpkg: warning: ignoring request to remove libxnvctrl0 which isn't installed
dpkg: warning: ignoring request to remove libz3-4 which isn't installed
dpkg: warning: ignoring request to remove mpi-default-bin which isn't installed
dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which isn't installed
Purging configuration files for openmpi-bin (5.0.7-1) ...
dpkg: warning: ignoring request to remove openmpi-common which isn't installed
Purging configuration files for openssh-client (1:9.9p2-2) ...
warn: The group `ssh' does not exist.
0m28.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--purge', 'cp2k-data', 'ibverbs-providers:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libcbor0.10:amd64', 'libcbor0.8:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libelpa19', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfido2-1:amd64', 'libfuse3-4:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libint2-2t64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libscalapack-openmpi2.2:amd64', 'libsymspg1:amd64', 'libsymspg2:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxc9:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'mpi-default-bin', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client']
0m28.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--purge', 'cp2k']
0m28.6s DUMP:
dpkg: warning: ignoring request to remove cp2k which isn't installed
0m28.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--purge', 'cp2k']
0m28.6s INFO: Running scripts post_purge
0m28.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_purge_exceptions']
0m28.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_purge_exceptions']
0m28.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--purge', '--pending']
0m28.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--purge', '--pending']
0m28.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--remove', '--pending']
0m28.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg', '--remove', '--pending']
0m28.6s INFO: Running scripts post_test
0m28.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_test_exceptions']
0m28.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'tmp/scripts/post_test_exceptions']
0m28.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m28.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m28.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg-divert', '--list']
0m28.8s DUMP:
diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra
diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64
local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged
diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra
diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64
diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra
local diversion of /home to /home.distrib
diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6
diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64
diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64
diversion of /libx32 to /.libx32.usr-is-merged by base-files
local diversion of /usr/bin/sync to /usr/bin/sync.distrib
diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra
diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra
diversion of /lib32 to /.lib32.usr-is-merged by base-files
diversion of /libo32 to /.libo32.usr-is-merged by base-files
diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra
0m28.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'dpkg-divert', '--list']
0m28.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'clean']
0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmph7lviocg', 'apt-get', 'clean']
0m28.9s DEBUG: Recording chroot state
0m29.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/shm']
0m29.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/shm']
0m29.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/console']
0m29.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/console']
0m29.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/ptmx']
0m29.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/ptmx']
0m29.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/pts']
0m29.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/dev/pts']
0m29.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/proc']
0m29.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmph7lviocg/proc']
0m29.6s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m29.7s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmph7lviocg']
0m29.7s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmph7lviocg
0m29.7s INFO: PASS: Upgrading between Debian distributions.
0m29.7s INFO: PASS: All tests.
0m29.7s INFO: piuparts run ends.
ret=0
End: 2025-04-11 15:56:42 GMT