Diff of the two buildlogs: -- --- b1/build.log 2024-11-11 13:09:13.037037229 +0000 +++ b2/build.log 2024-11-11 14:22:34.036199653 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Nov 10 22:13:50 -12 2024 -I: pbuilder-time-stamp: 1731320030 +I: Current time: Mon Dec 15 09:32:17 +14 2025 +I: pbuilder-time-stamp: 1765740737 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./pymatgen_2022.11.7+dfsg1.orig.tar.xz] I: copying [./pymatgen_2022.11.7+dfsg1-11+deb12u1.debian.tar.xz] I: Extracting source -gpgv: Signature made Wed Aug 28 01:54:04 2024 -12 +gpgv: Signature made Thu Aug 29 03:54:04 2024 +14 gpgv: using RSA key B6E62F3D12AC38495C0DA90510C293B6C37C4E36 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pymatgen_2022.11.7+dfsg1-11+deb12u1.dsc: no acceptable signature found @@ -40,135 +40,167 @@ dpkg-source: info: applying CVE-2024-23346.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/285069/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Dec 15 09:32 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='120292ae687448c2957e638cbe542696' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='285069' - PS1='# ' - PS2='> ' + INVOCATION_ID=35b699d2dda6460a9b7030f6043d80bd + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=2952592 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.XoLxd3aY/pbuilderrc_nrYH --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.XoLxd3aY/b1 --logfile b1/build.log pymatgen_2022.11.7+dfsg1-11+deb12u1.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.XoLxd3aY/pbuilderrc_CIH6 --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.XoLxd3aY/b2 --logfile b2/build.log pymatgen_2022.11.7+dfsg1-11+deb12u1.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux I: ls -l /bin total 7104 - -rwxr-xr-x 1 root root 1346480 Mar 29 2024 bash - -rwxr-xr-x 3 root root 67728 Sep 18 2022 bunzip2 - -rwxr-xr-x 3 root root 67728 Sep 18 2022 bzcat - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep - -rwxr-xr-x 3 root root 67728 Sep 18 2022 bzip2 - -rwxr-xr-x 1 root root 67664 Sep 18 2022 bzip2recover - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore - -rwxr-xr-x 1 root root 68536 Sep 20 2022 cat - -rwxr-xr-x 1 root root 68616 Sep 20 2022 chgrp - -rwxr-xr-x 1 root root 68552 Sep 20 2022 chmod - -rwxr-xr-x 1 root root 68632 Sep 20 2022 chown - -rwxr-xr-x 1 root root 200264 Sep 20 2022 cp - -rwxr-xr-x 1 root root 133640 Jan 5 2023 dash - -rwxr-xr-x 1 root root 134144 Sep 20 2022 date - -rwxr-xr-x 1 root root 134248 Sep 20 2022 dd - -rwxr-xr-x 1 root root 134888 Sep 20 2022 df - -rwxr-xr-x 1 root root 200440 Sep 20 2022 dir - -rwxr-xr-x 1 root root 141720 Oct 18 00:56 dmesg - lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname - -rwxr-xr-x 1 root root 68408 Sep 20 2022 echo - -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep - -rwxr-xr-x 1 root root 68384 Sep 20 2022 false - -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep - -rwxr-xr-x 1 root root 134584 Oct 18 00:56 findmnt - -rwsr-xr-x 1 root root 67744 Mar 22 2023 fusermount - -rwxr-xr-x 1 root root 198880 Jan 24 2023 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 93752 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 67592 Dec 19 2022 hostname - -rwxr-xr-x 1 root root 68664 Sep 20 2022 ln - -rwxr-xr-x 1 root root 69208 Mar 22 2023 login - -rwxr-xr-x 1 root root 200440 Sep 20 2022 ls - -rwxr-xr-x 1 root root 264360 Oct 18 00:56 lsblk - -rwxr-xr-x 1 root root 134384 Sep 20 2022 mkdir - -rwxr-xr-x 1 root root 68768 Sep 20 2022 mknod - -rwxr-xr-x 1 root root 68472 Sep 20 2022 mktemp - -rwxr-xr-x 1 root root 67752 Oct 18 00:56 more - -rwsr-xr-x 1 root root 67744 Oct 18 00:56 mount - -rwxr-xr-x 1 root root 67744 Oct 18 00:56 mountpoint - -rwxr-xr-x 1 root root 134728 Sep 20 2022 mv - lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 2 2023 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 68496 Sep 20 2022 pwd - lrwxrwxrwx 1 root root 4 Mar 29 2024 rbash -> bash - -rwxr-xr-x 1 root root 68456 Sep 20 2022 readlink - -rwxr-xr-x 1 root root 68592 Sep 20 2022 rm - -rwxr-xr-x 1 root root 68480 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 68392 Jul 28 2023 run-parts - -rwxr-xr-x 1 root root 134536 Jan 5 2023 sed - lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash - -rwxr-xr-x 1 root root 68432 Sep 20 2022 sleep - -rwxr-xr-x 1 root root 134088 Sep 20 2022 stty - -rwsr-xr-x 1 root root 133312 Oct 18 00:56 su - -rwxr-xr-x 1 root root 68448 Sep 20 2022 sync - -rwxr-xr-x 1 root root 539896 Jan 19 2024 tar - -rwxr-xr-x 1 root root 67904 Jul 28 2023 tempfile - -rwxr-xr-x 1 root root 134160 Sep 20 2022 touch - -rwxr-xr-x 1 root root 68384 Sep 20 2022 true - -rwxr-xr-x 1 root root 67664 Mar 22 2023 ulockmgr_server - -rwsr-xr-x 1 root root 67744 Oct 18 00:56 umount - -rwxr-xr-x 1 root root 68416 Sep 20 2022 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 200440 Sep 20 2022 vdir - -rwxr-xr-x 1 root root 133312 Oct 18 00:56 wdctl - lrwxrwxrwx 1 root root 8 Dec 19 2022 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat - -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp - -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff - -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep - -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep - -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce - -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep - -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless - -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore - -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew -I: user script /srv/workspace/pbuilder/285069/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1346480 Mar 30 2024 bash + -rwxr-xr-x 3 root root 67728 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 67728 Sep 19 2022 bzcat + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep + -rwxr-xr-x 3 root root 67728 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 67664 Sep 19 2022 bzip2recover + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore + -rwxr-xr-x 1 root root 68536 Sep 21 2022 cat + -rwxr-xr-x 1 root root 68616 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 68552 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 68632 Sep 21 2022 chown + -rwxr-xr-x 1 root root 200264 Sep 21 2022 cp + -rwxr-xr-x 1 root root 133640 Jan 6 2023 dash + -rwxr-xr-x 1 root root 134144 Sep 21 2022 date + -rwxr-xr-x 1 root root 134248 Sep 21 2022 dd + -rwxr-xr-x 1 root root 134888 Sep 21 2022 df + -rwxr-xr-x 1 root root 200440 Sep 21 2022 dir + -rwxr-xr-x 1 root root 141720 Oct 19 2024 dmesg + lrwxrwxrwx 1 root root 8 Dec 20 2022 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Dec 20 2022 domainname -> hostname + -rwxr-xr-x 1 root root 68408 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 2023 egrep + -rwxr-xr-x 1 root root 68384 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 2023 fgrep + -rwxr-xr-x 1 root root 134584 Oct 19 2024 findmnt + -rwsr-xr-x 1 root root 67744 Mar 23 2023 fusermount + -rwxr-xr-x 1 root root 198880 Jan 25 2023 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 93752 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 67592 Dec 20 2022 hostname + -rwxr-xr-x 1 root root 68664 Sep 21 2022 ln + -rwxr-xr-x 1 root root 69208 Mar 24 2023 login + -rwxr-xr-x 1 root root 200440 Sep 21 2022 ls + -rwxr-xr-x 1 root root 264360 Oct 19 2024 lsblk + -rwxr-xr-x 1 root root 134384 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 68768 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 68472 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 67752 Oct 19 2024 more + -rwsr-xr-x 1 root root 67744 Oct 19 2024 mount + -rwxr-xr-x 1 root root 67744 Oct 19 2024 mountpoint + -rwxr-xr-x 1 root root 134728 Sep 21 2022 mv + lrwxrwxrwx 1 root root 8 Dec 20 2022 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 68496 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Mar 30 2024 rbash -> bash + -rwxr-xr-x 1 root root 68456 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 68592 Sep 21 2022 rm + -rwxr-xr-x 1 root root 68480 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 68392 Jul 29 2023 run-parts + -rwxr-xr-x 1 root root 134536 Jan 6 2023 sed + lrwxrwxrwx 1 root root 9 Dec 15 09:32 sh -> /bin/bash + -rwxr-xr-x 1 root root 68432 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 134088 Sep 21 2022 stty + -rwsr-xr-x 1 root root 133312 Oct 19 2024 su + -rwxr-xr-x 1 root root 68448 Sep 21 2022 sync + -rwxr-xr-x 1 root root 539896 Jan 20 2024 tar + -rwxr-xr-x 1 root root 67904 Jul 29 2023 tempfile + -rwxr-xr-x 1 root root 134160 Sep 21 2022 touch + -rwxr-xr-x 1 root root 68384 Sep 21 2022 true + -rwxr-xr-x 1 root root 67664 Mar 23 2023 ulockmgr_server + -rwsr-xr-x 1 root root 67744 Oct 19 2024 umount + -rwxr-xr-x 1 root root 68416 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 200440 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 133312 Oct 19 2024 wdctl + lrwxrwxrwx 1 root root 8 Dec 20 2022 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -621,7 +653,7 @@ Get: 347 http://deb.debian.org/debian bookworm/main arm64 python3-tqdm all 4.64.1-1 [97.7 kB] Get: 348 http://deb.debian.org/debian bookworm/main arm64 python3-uncertainties all 3.1.6-1 [79.1 kB] Get: 349 http://deb.debian.org/debian bookworm/main arm64 python3-vtk9 arm64 9.1.0+really9.1.0+dfsg2-5 [6564 kB] -Fetched 414 MB in 9s (44.5 MB/s) +Fetched 414 MB in 5s (81.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package fonts-lato. (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 ... 19569 files and directories currently installed.) @@ -2065,7 +2097,11 @@ fakeroot is already the newest version (1.31-1.2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/reproducible-path/pymatgen-2022.11.7+dfsg1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../pymatgen_2022.11.7+dfsg1-11+deb12u1_source.changes +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for bookworm +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/pymatgen-2022.11.7+dfsg1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../pymatgen_2022.11.7+dfsg1-11+deb12u1_source.changes dpkg-buildpackage: info: source package pymatgen dpkg-buildpackage: info: source version 2022.11.7+dfsg1-11+deb12u1 dpkg-buildpackage: info: source distribution bookworm-security @@ -2610,7 +2646,7 @@ reading sources... [ 4%] pymatgen.alchemy.transmuters reading sources... [ 5%] pymatgen.analysis reading sources... [ 5%] pymatgen.analysis.adsorption -Matplotlib created a temporary config/cache directory at /tmp/matplotlib-b3kiphch because the default path (/nonexistent/first-build/.config/matplotlib) is not a writable directory; it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing. +Matplotlib created a temporary config/cache directory at /tmp/matplotlib-9kisg2t6 because the default path (/nonexistent/second-build/.config/matplotlib) is not a writable directory; it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing. reading sources... [ 5%] pymatgen.analysis.bond_dissociation reading sources... [ 6%] pymatgen.analysis.bond_valence reading sources... [ 6%] pymatgen.analysis.chemenv @@ -3254,8 +3290,8 @@ /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/core/surface.py:docstring of pymatgen.core.surface:2: WARNING: Block quote ends without a blank line; unexpected unindent. /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/core/trajectory.py:docstring of pymatgen.core.trajectory.Trajectory:19: ERROR: Unexpected indentation. /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/core/trajectory.py:docstring of pymatgen.core.trajectory.Trajectory:11: WARNING: Block quote ends without a blank line; unexpected unindent. -WARNING: Failed to get a method signature for pymatgen.core.xcfunc.XcFunc.name: is not a callable object -WARNING: Failed to get a method signature for pymatgen.core.xcfunc.XcFunc.type: is not a callable object +WARNING: Failed to get a method signature for pymatgen.core.xcfunc.XcFunc.name: is not a callable object +WARNING: Failed to get a method signature for pymatgen.core.xcfunc.XcFunc.type: is not a callable object /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/core/xcfunc.py:docstring of pymatgen.core.xcfunc.XcFunc:28: ERROR: Unknown target name: "xc". WARNING: autodoc: failed to import module 'dao' from module 'pymatgen'; the following exception was raised: No module named 'pymatgen.dao' @@ -3344,8 +3380,8 @@ /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/io/abinit/inputs.py:docstring of pymatgen.io.abinit.inputs.ion_ioncell_relax_input:5: ERROR: Undefined substitution referenced: "Pseudo". /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/io/abinit/inputs.py:docstring of pymatgen.io.abinit.inputs.ion_ioncell_relax_input:5: ERROR: Undefined substitution referenced: "PseudoTable". /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/io/abinit/inputs.py:docstring of pymatgen.io.abinit.inputs.num_valence_electrons:3: ERROR: Undefined substitution referenced: "Pseudo". -WARNING: Failed to get a method signature for pymatgen.io.abinit.netcdf.ETSF_Reader.chemical_symbols: is not a callable object -WARNING: Failed to get a method signature for pymatgen.io.abinit.pseudos.Pseudo.md5: is not a callable object +WARNING: Failed to get a method signature for pymatgen.io.abinit.netcdf.ETSF_Reader.chemical_symbols: is not a callable object +WARNING: Failed to get a method signature for pymatgen.io.abinit.pseudos.Pseudo.md5: is not a callable object /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/io/cif.py:docstring of pymatgen.io.cif.CifBlock:9: ERROR: Unknown target name: "data". /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/io/cp2k/inputs.py:docstring of pymatgen.io.cp2k.inputs.Davidson:7: ERROR: Unexpected indentation. /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/io/cp2k/inputs.py:docstring of pymatgen.io.cp2k.inputs:9: WARNING: Block quote ends without a blank line; unexpected unindent. @@ -3485,7 +3521,7 @@ /build/reproducible-path/pymatgen-2022.11.7+dfsg1/docs_rst/pymatgen.optimization.rst:14: WARNING: duplicated entry found in toctree: pymatgen.optimization.linear_assignment /build/reproducible-path/pymatgen-2022.11.7+dfsg1/docs_rst/pymatgen.optimization.rst:14: WARNING: duplicated entry found in toctree: pymatgen.optimization.neighbors /build/reproducible-path/pymatgen-2022.11.7+dfsg1/docs_rst/pymatgen.optimization.rst:14: WARNING: duplicated entry found in toctree: pymatgen.optimization.neighbors -WARNING: Failed to get a method signature for pymatgen.phonon.dos.PhononDos.ind_zero_freq: is not a callable object +WARNING: Failed to get a method signature for pymatgen.phonon.dos.PhononDos.ind_zero_freq: is not a callable object /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/phonon/gruneisen.py:docstring of pymatgen.phonon.gruneisen.GruneisenParameter.debye_temp_phonopy:3: ERROR: Unexpected indentation. /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/phonon/ir_spectra.py:docstring of pymatgen.phonon.ir_spectra:1: ERROR: Unknown interpreted text role "cite". /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/cpython3_3.11_pymatgen/build/pymatgen/phonon/ir_spectra.py:docstring of pymatgen.phonon.ir_spectra:4: ERROR: Unknown interpreted text role "cite". @@ -4298,36 +4334,36 @@ .pybuild/test_python3.11/pymatgen/vis/tests/test_plotters.py .. [100%] ============================= slowest 30 durations ============================= -6617.86s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_rotor_search_rrs -661.11s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_rotor_search_wrs -90.81s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_rotor_search_srs -70.52s call .pybuild/test_python3.11/pymatgen/symmetry/tests/test_kpath_lm.py::KPathLatimerMunroTest::test_kpath_generation -59.42s call .pybuild/test_python3.11/pymatgen/io/vasp/tests/test_outputs.py::VasprunTest::test_runtype -57.00s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_fragmenter.py::TestFragmentMolecule::test_babel_PC_with_RO_depth_0_vs_depth_10 -53.20s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_plot -51.76s call .pybuild/test_python3.11/pymatgen/io/vasp/tests/test_optics.py::VasprunTest::test_optics -51.56s call .pybuild/test_python3.11/pymatgen/electronic_structure/tests/test_plotter.py::BSPlotterProjectedTest::test_methods -51.28s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_structure_analyzer.py::MiscFunctionTest::test_average_coordination_number -42.01s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_phdos -42.00s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_multi -41.42s call .pybuild/test_python3.11/pymatgen/io/lobster/tests/test_lobsterenv.py::TestLobsterNeighbors::test_get_info_cohps_to_neighbors -41.14s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_thermal_conductivity_slack -40.23s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_fragmenter.py::TestFragmentMolecule::test_PC_then_EC_depth_10 -39.84s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_make3d -39.82s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_confab_conformers -37.97s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_tdos -36.22s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_fromdict_asdict -35.05s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_gruneisen -34.25s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_average_gruneisen -33.48s call .pybuild/test_python3.11/pymatgen/analysis/elasticity/tests/test_elastic.py::DiffFitTest::test_fit -32.94s call .pybuild/test_python3.11/pymatgen/core/tests/test_surface.py::SlabTest::test_symmetrization -32.48s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_frequencies -28.03s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_adsorption.py::AdsorbateSiteFinderTest::test_generate_substitution_structures -27.67s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_prototypes.py::AflowPrototypeMatcherTest::test_prototype_matching -26.75s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_plotter.py::PhononBSPlotterTest::test_proj_plot -26.62s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_adsorption.py::AdsorbateSiteFinderTest::test_from_bulk_and_miller -26.37s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_acoustic_debye_temp -25.79s call .pybuild/test_python3.11/pymatgen/core/tests/test_surface.py::MillerIndexFinderTests::test_generate_all_slabs +1340.83s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_rotor_search_rrs +108.24s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_structure_analyzer.py::MiscFunctionTest::test_average_coordination_number +80.33s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_fragmenter.py::TestFragmentMolecule::test_babel_PC_with_RO_depth_0_vs_depth_10 +62.37s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_prototypes.py::AflowPrototypeMatcherTest::test_prototype_matching +61.62s call .pybuild/test_python3.11/pymatgen/electronic_structure/tests/test_plotter.py::BSPlotterProjectedTest::test_methods +49.18s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_adsorption.py::AdsorbateSiteFinderTest::test_adsorb_both_surfaces +44.85s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_fragmenter.py::TestFragmentMolecule::test_PC_then_EC_depth_10 +42.68s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_rotor_search_wrs +41.97s call .pybuild/test_python3.11/pymatgen/io/vasp/tests/test_outputs.py::VasprunTest::test_runtype +35.08s call .pybuild/test_python3.11/pymatgen/io/lobster/tests/test_lobsterenv.py::TestLobsterNeighbors::test_get_info_cohps_to_neighbors +34.57s call .pybuild/test_python3.11/pymatgen/io/vasp/tests/test_optics.py::VasprunTest::test_optics +34.49s call .pybuild/test_python3.11/pymatgen/analysis/topological/tests/test_spillage.py::SolarTest::test_spillage_from_vasprun +33.00s call .pybuild/test_python3.11/pymatgen/analysis/elasticity/tests/test_elastic.py::DiffFitTest::test_fit +32.62s call .pybuild/test_python3.11/pymatgen/symmetry/tests/test_kpath_lm.py::KPathLatimerMunroTest::test_kpath_generation +31.54s call .pybuild/test_python3.11/pymatgen/analysis/elasticity/tests/test_elastic.py::ElasticTensorExpansionTest::test_get_yield_stress +29.63s call .pybuild/test_python3.11/pymatgen/core/tests/test_surface.py::SlabTest::test_get_symmetric_sites +27.27s call .pybuild/test_python3.11/pymatgen/analysis/elasticity/tests/test_elastic.py::ElasticTensorExpansionTest::test_from_diff_fit +25.50s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_adsorption.py::AdsorbateSiteFinderTest::test_functions +23.81s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_adsorption.py::AdsorbateSiteFinderTest::test_generate_adsorption_structures +23.60s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_adsorption.py::AdsorbateSiteFinderTest::test_from_bulk_and_miller +22.64s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_plot +21.44s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_adsorption.py::AdsorbateSiteFinderTest::test_find_adsorption_sites +21.19s call .pybuild/test_python3.11/pymatgen/analysis/gb/tests/test_grain.py::GrainBoundaryGeneratorTest::test_gb_from_parameters +21.11s call .pybuild/test_python3.11/pymatgen/core/tests/test_surface.py::SlabTest::test_oriented_unit_cell +19.52s call .pybuild/test_python3.11/pymatgen/io/tests/test_babel.py::BabelMolAdaptorTest::test_confab_conformers +18.25s call .pybuild/test_python3.11/pymatgen/io/lobster/tests/test_lobster.py::FatbandTest::test_get_bandstructure +17.66s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_local_env.py::VoronoiNNTest::test_filtered +17.45s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_thermal_conductivity_slack +17.08s call .pybuild/test_python3.11/pymatgen/phonon/tests/test_gruneisen.py::GruneisenParameterTest::test_tdos +16.94s call .pybuild/test_python3.11/pymatgen/analysis/tests/test_transition_state.py::NEBAnalysisTest::test_combine_neb_plots =========================== short test summary info ============================ SKIPPED [1] .pybuild/test_python3.11/pymatgen/io/tests/test_packmol.py:18: packmol executable not present SKIPPED [1] .pybuild/test_python3.11/pymatgen/io/vasp/tests/test_sets.py:61: unittest.case.SkipTest: PMG_VASP_PSP_DIR is not set. Skipping tests in /build/reproducible-path/pymatgen-2022.11.7+dfsg1/.pybuild/test_python3.11/pymatgen/io/vasp/tests/test_sets.py. @@ -4477,7 +4513,7 @@ SKIPPED [1] .pybuild/test_python3.11/pymatgen/transformations/tests/test_standard_transformations.py:262: enum_lib not present. SKIPPED [1] .pybuild/test_python3.11/pymatgen/transformations/tests/test_standard_transformations.py:290: enum_lib not present. SKIPPED [1] .pybuild/test_python3.11/pymatgen/transformations/tests/test_standard_transformations.py:283: enum_lib not present. -======== 1993 passed, 148 skipped, 177 deselected in 9765.90s (2:42:45) ======== +======== 1993 passed, 148 skipped, 177 deselected in 3614.36s (1:00:14) ======== ..tot conformations = 3 ..tot confs tested = 3 ..below energy threshold = 3 @@ -4523,8 +4559,8 @@ dpkg-gencontrol: warning: package python-pymatgen-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild -dpkg-deb: building package 'python3-pymatgen-dbgsym' in '../python3-pymatgen-dbgsym_2022.11.7+dfsg1-11+deb12u1_arm64.deb'. dpkg-deb: building package 'python3-pymatgen' in '../python3-pymatgen_2022.11.7+dfsg1-11+deb12u1_arm64.deb'. +dpkg-deb: building package 'python3-pymatgen-dbgsym' in '../python3-pymatgen-dbgsym_2022.11.7+dfsg1-11+deb12u1_arm64.deb'. dpkg-deb: building package 'python-pymatgen-doc' in '../python-pymatgen-doc_2022.11.7+dfsg1-11+deb12u1_all.deb'. dpkg-genbuildinfo --build=binary -O../pymatgen_2022.11.7+dfsg1-11+deb12u1_arm64.buildinfo dpkg-genchanges --build=binary -O../pymatgen_2022.11.7+dfsg1-11+deb12u1_arm64.changes @@ -4534,12 +4570,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2952592/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/285069 and its subdirectories -I: Current time: Mon Nov 11 01:09:11 -12 2024 -I: pbuilder-time-stamp: 1731330551 +I: removing directory /srv/workspace/pbuilder/2952592 and its subdirectories +I: Current time: Mon Dec 15 10:45:32 +14 2025 +I: pbuilder-time-stamp: 1765745132