Sat Sep 14 15:08:51 UTC 2024 I: starting to build ctdopts/unstable/arm64 on jenkins on '2024-09-14 15:08' Sat Sep 14 15:08:51 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_6/57478/console.log Sat Sep 14 15:08:52 UTC 2024 I: Downloading source for unstable/ctdopts=1.5-5 --2024-09-14 15:08:52-- http://deb.debian.org/debian/pool/main/c/ctdopts/ctdopts_1.5-5.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2046 (2.0K) [text/prs.lines.tag] Saving to: ‘ctdopts_1.5-5.dsc’ 0K . 100% 290M=0s 2024-09-14 15:08:52 (290 MB/s) - ‘ctdopts_1.5-5.dsc’ saved [2046/2046] Sat Sep 14 15:08:52 UTC 2024 I: ctdopts_1.5-5.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: ctdopts Binary: python3-ctdopts Architecture: all Version: 1.5-5 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe Homepage: https://github.com/WorkflowConversion/CTDopts Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/ctdopts Vcs-Git: https://salsa.debian.org/med-team/ctdopts.git Testsuite: autopkgtest Testsuite-Triggers: python3-all Build-Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, python3-tz Package-List: python3-ctdopts deb python optional arch=all Checksums-Sha1: 0c5263f3bf3f4005a98695e873859c647a58a727 34895 ctdopts_1.5.orig.tar.gz 6552d9551c62270f4564a49d56c6f882fb35d7d4 3132 ctdopts_1.5-5.debian.tar.xz Checksums-Sha256: 0162fc066555f8f82dbb47a285393c58c864b1fcf549eacabba9e16b2dec9f73 34895 ctdopts_1.5.orig.tar.gz 93f7f7c0c5119eb46ceb73e0f1c9a0927979d17b2d041fb996d9a41316a25f16 3132 ctdopts_1.5-5.debian.tar.xz Files: d17d2d548bf95c20abf81bb957d4fa5b 34895 ctdopts_1.5.orig.tar.gz 4c1e04d0e0cce8735df90ecb07c1e855 3132 ctdopts_1.5-5.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEEj23hBDd/OxHnQXSHMfMURUShdBoFAmbkF8MRHHRjaGV0QGRl Ymlhbi5vcmcACgkQMfMURUShdBoxfQ//WPDpzCqlNaoBVGa/BSh40g49UYRQ69w8 UGiLYtHPF45VLV0ijOf7zwrIJ8eyKpR5i6y4BCIlYBdFBVfDJNRrTruWH3HQNa/4 caGKgyR82hg1tDlT7WWImNbI/6Xp936eDIjplG9e/MJGbXcZrs3cT2Fb4yAWlk3/ MtyaUs5Vkh3tzjiSJDuHgnjbTsfOOS7+0aWICl4lPy+VF1CMk02dmLkv92eHi63i LsAqkcIuozofM84hKp5NJB9dvedLy8sCt8Jq3Uoa+qxgjAhpaoVedU8spfMuvgtX sOMOsVlXzwAlpMuy2g+7YCMdFtj+Fi9CWb+qJu6qEfGUS67+F9AuHV5rOLlFhFyn 0KWajg8P70E5y9ZnazFp7yBrS+8SySwM3Ng9FNQbDivb1nP+rQyxWgYWDAjiy5RQ V2/ZbaxwEZGldWN5lzmeJD8UBdrdQQr6b6ntBapBeBrGzOlmxSVw4ZST2us5fuOT YtxPxEO3qNTqhczhEWRFRSmAmFga5X5rBISSdLXeGiD0/7kDphjfw48lR+O+UMSd l6ipui9ksx3+Zb5LZ1QZ+j2LFIBv8ZLb8RkH1TSHVjk8Ue5wbtATfbC0Q+qNNhYW drQV8UuG1DUBgs9ym3VAKbSoKBLdvlVk+pejWomletGDfg3xqvW4BGDbzWjn+np1 DQ3Fh68YdcY= =41mg -----END PGP SIGNATURE----- Sat Sep 14 15:08:52 UTC 2024 I: Checking whether the package is not for us Sat Sep 14 15:08:52 UTC 2024 I: Starting 1st build on remote node codethink04-arm64.debian.net. Sat Sep 14 15:08:52 UTC 2024 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Sat Sep 14 15:09:30 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Sep 14 03:08:54 -12 2024 I: pbuilder-time-stamp: 1726326534 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [ctdopts_1.5-5.dsc] I: copying [./ctdopts_1.5.orig.tar.gz] I: copying [./ctdopts_1.5-5.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Sep 13 10:45:23 2024 gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A gpgv: issuer "tchet@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./ctdopts_1.5-5.dsc: no acceptable signature found dpkg-source: info: extracting ctdopts in ctdopts-1.5 dpkg-source: info: unpacking ctdopts_1.5.orig.tar.gz dpkg-source: info: unpacking ctdopts_1.5-5.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3598301/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' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='4d7be2e4c13249aea6379a519c8801c3' 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='3598301' PS1='# ' PS2='> ' 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.sCZwn2kQ/pbuilderrc_mn0G --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.sCZwn2kQ/b1 --logfile b1/build.log ctdopts_1.5-5.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' I: uname -a Linux codethink04-arm64 6.1.0-25-cloud-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3598301/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, python3-tz dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19892 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-tz; however: Package python3-tz is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libcom-err2{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libmagic-mgc{a} libmagic1t64{a} libnsl2{a} libpipeline1{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 63 newly installed, 0 to remove and 0 not upgraded. Need to get 27.4 MB of archives. After unpacking 115 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.12-minimal arm64 3.12.6-1 [806 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.3-1 [90.2 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.12-minimal arm64 3.12.6-1 [1935 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.12.5-1+b1 [26.9 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2024a-4 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.1-1 [22.8 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-3 [9112 B] Get: 12 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3 [78.4 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libnsl2 arm64 1.3.0-3+b2 [37.7 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-5 [159 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libpython3.12-stdlib arm64 3.12.6-1 [1898 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 python3.12 arm64 3.12.6-1 [669 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.12.5-1+b1 [9872 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.12.5-1+b1 [27.9 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.2-8 [96.6 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-7 [517 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 44 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.191-2 [188 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-5 [9224 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg-3+b1 [609 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.20 [915 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.4.0-1 [63.7 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.3.0-1 [36.5 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.3.1-1 [42.2 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 58 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.0.2-1 [11.7 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 74.1.2-2 [213 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.20.1-1 [10.2 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 74.1.2-2 [736 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20240824 [109 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 python3-tz all 2024.1-2 [30.9 kB] Fetched 27.4 MB in 0s (145 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:arm64. (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 ... 19892 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.6-1_arm64.deb ... Unpacking libpython3.12-minimal:arm64 (3.12.6-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.6.3-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.3-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.6-1_arm64.deb ... Unpacking python3.12-minimal (3.12.6-1) ... Setting up libpython3.12-minimal:arm64 (3.12.6-1) ... Setting up libexpat1:arm64 (2.6.3-1) ... Setting up python3.12-minimal (3.12.6-1) ... Selecting previously unselected package python3-minimal. (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 ... 20212 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.5-1+b1_arm64.deb ... Unpacking python3-minimal (3.12.5-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../05-libcom-err2_1.47.1-1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.1-1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../07-libkeyutils1_1.6.3-3_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-3) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.4+ds-1.3) ... Selecting previously unselected package libnsl2:arm64. Preparing to unpack .../12-libnsl2_1.3.0-3+b2_arm64.deb ... Unpacking libnsl2:arm64 (1.3.0-3+b2) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../14-libreadline8t64_8.2-5_arm64.deb ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/ctdopts-1.5/ && 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 > ../ctdopts_1.5-5_source.changes dpkg-buildpackage: info: source package ctdopts dpkg-buildpackage: info: source version 1.5-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py clean 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py config debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/ctdopts-1.5' dh_auto_build I: pybuild base:311: /usr/bin/python3 setup.py build # an override, not a PYBUILD directive, as we only need to do this once # not for every Python version sed 's#^print$#print()#' example.py > debian/example.py make[1]: Leaving directory '/build/reproducible-path/ctdopts-1.5' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/ctdopts-1.5' export PYBUILD_SYSTEM=custom; dh_auto_test I: pybuild base:311: PYTHONPATH=/build/reproducible-path/ctdopts-1.5/.pybuild/cpython3_3.12_CTDopts/build python3.12 debian/example.py /build/reproducible-path/ctdopts-1.5/.pybuild/cpython3_3.12_CTDopts/build/CTDopts/CTDopts.py:1071: UserWarning: Argument restrictions for positive_int violated. Restriction: 0:. Value: -5 warnings.warn('Argument restrictions for %s violated. Restriction: %s. Value: %s' % /build/reproducible-path/ctdopts-1.5/.pybuild/cpython3_3.12_CTDopts/build/CTDopts/CTDopts.py:1071: UserWarning: Argument restrictions for output violated. Restriction: *.fastq,*.fastq.gz. Value: warnings.warn('Argument restrictions for %s violated. Restriction: %s. Value: %s' % Model being written to exampleTool.ctd... Model loaded from exampleTool.ctd... For debugging purposes we can output a human readable representation of Parameter objects. Here's the first one: PARAMETER positive_int type: int default: 5 tags: advanced, magic restrictions on numeric range: 0 to None description: A positive integer parameter The following parameters were registered in the model: ['positive_int', 'input_files', 'output', 'this_that', 'param_1', 'param_2', 'param_3'] The same parameters with subgroup information, if they were registered under parameter groups: ['positive_int', 'input_files', 'output', 'this_that', 'subparams:param_1', 'subparams:param_2', 'subparams:subsubparam:param_3'] A dictionary of parameters with default values, returned by CTDModel.get_defaults(): { 'positive_int': 5, 'subparams': { 'param_1': 5.5, 'param_2': [0.0, 2.5, 5.0], 'subsubparam': {'param_3': 2}}, 'this_that': 'this'} As you can see, parameter values are usually stored in nested dictionaries. If you want a flat dictionary, you canget that using CTDopts.flatten_dict(). Flat keys can be either tuples of tree node (subgroup) names down to the parameter... { ('positive_int',): 5, ('subparams', 'param_1'): 5.5, ('subparams', 'param_2'): [0.0, 2.5, 5.0], ('subparams', 'subsubparam', 'param_3'): 2, ('this_that',): 'this'} ...or they can be strings where nesing levels are separated by colons: { 'positive_int': 5, 'subparams:param_1': 5.5, 'subparams:param_2': [0.0, 2.5, 5.0], 'subparams:subsubparam:param_3': 2, 'this_that': 'this'} We can create dictionaries of arguments on our own that we want to validate against the model.CTDopts can read them from argument-storing CTD files or from the command line, but we can just define them in a nested dictionary on our own as well. We start with defining them explicitly. { 'input_files': ['file1.fastq', 'file2.fastq', 'file3.fastq'], 'positive_int': 111, 'subparams': {'param_1': '999.0'}} We can validate these arguments against the model, and get a dictionary with parameter types correctly casted and defaults set. Note that subparams:param_1 was casted from string to a floating point number because that's how it was defined in the model. { 'input_files': ['file1.fastq', 'file2.fastq', 'file3.fastq'], 'positive_int': 111, 'subparams': { 'param_1': 999.0, 'param_2': [0.0, 2.5, 5.0], 'subsubparam': {'param_3': 2}}, 'this_that': 'this'} We can write a CTD file containing these validated argument values. Just call CTDModel.write_ctd() with an extra parameter: the nested argument dictionary containing the actual values. As mentioned earlier, CTDopts can load argument values from CTD files. Feel free to change some values in exampleTool_preset_params.ctd you've just written, and load it back. { 'input_files': ['file1.fastq', 'file2.fastq', 'file3.fastq'], 'output': '', 'positive_int': '111', 'subparams': { 'param_1': '999.0', 'param_2': ['0.0', '2.5', '5.0'], 'subsubparam': {'param_3': '2'}}, 'this_that': 'this'} Notice that all the argument values are strings now. This is because we didn't validate them against the model, just loaded some stuff from a file into a dictionary. If you want to cast them, call CTDModel.validate_args(): { 'input_files': ['file1.fastq', 'file2.fastq', 'file3.fastq'], 'output': '', 'positive_int': 111, 'subparams': { 'param_1': 999.0, 'param_2': [0.0, 2.5, 5.0], 'subsubparam': {'param_3': 2}}, 'this_that': 'this'} Now certain parameters may have restrictions that we might want to validate for as well. Let's set the parameter positive_int to a negative value, and try to validate it with a strictness level enforce_restrictions=1. This will register a warning, but still accept the value. Validation enforcement levels can be 0, 1 or 2 for type-casting, restriction-checking and required argument presence. They can be set with the keywords enforce_type, enforce_restrictions and enforce_required respectively. Let's increase strictness for restriction checking. CTDModel.validate_args() will now raise an exception that we'll catch: Argument restrictions for positive_int failed. Restriction: 0:. Value: -5 One might want to combine arguments loaded from a CTD file with arguments coming from elsewhere, like the command line.In that case, the method CTDopts.override_args(*arg_dicts) creates a combined argument dictionary where argument values are always taken from the rightmost (last) dictionary that has them. Let's override a few parameters: { 'input_files': ['file1.fastq', 'file2.fastq', 'file3.fastq'], 'positive_int': 777, 'subparams': { 'param_1': 999.0, 'param_2': [0.0, 2.5, 5.0], 'subsubparam': {'param_3': 2}}, 'this_that': 'that'} So how to deal with command line arguments? If we have a model, we can look for its arguments. Call CTDModel.parse_cl_args() with either a string of the command line call or a list with the split words. By default, it will assume a '--' prefix before parameter names, but it can be overridden with prefix='-'.Grouped parameters are expected in --group:subgroup:param_x format. { 'input_files': ['a.fastq', 'b.fastq'], 'output': 'out_dir/', 'positive_int': '44', 'subparams': { 'param_1': 5.5, 'param_2': ['5.0', '5.5', '6.0'], 'subsubparam': {'param_3': 2}}, 'this_that': 'this'} Override other parameters with them, and validate it against the model: { 'input_files': ['a.fastq', 'b.fastq'], 'output': 'out_dir/', 'positive_int': 44, 'subparams': { 'param_1': 5.5, 'param_2': [5.0, 5.5, 6.0], 'subsubparam': {'param_3': 2}}, 'this_that': 'this'} One last thing: certain command line directives that are specific to CTD functionality can be parsed for, to help your script performing common tasks. These are CTD argument input, CTD model file writing and CTD argument file writing. CTDopts.parse_cl_directives() can also be customized as to what directives to look for if the defaults --input_ctd, --write_tool_ctd and --write_param_ctd respectively don't satisfy you. { 'input_ctd': 'exampleTool_preset_params.ctd', 'write_param_ctd': 'new_preset_params.ctd', 'write_tool_ctd': None} { 'input_ctd': 'exampleTool_preset_params_2.ctd', 'write_param_ctd': None, 'write_tool_ctd': True} Finally, writing CTDs with logging information, passing a dictionarywith a 'log' keyword, using any or all of the fields shown below. make[1]: Leaving directory '/build/reproducible-path/ctdopts-1.5' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/python3-ctdopts/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/ctdopts-1.5/debian/python3-ctdopts /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installexamples -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-ctdopts' in '../python3-ctdopts_1.5-5_all.deb'. dpkg-genbuildinfo --build=binary -O../ctdopts_1.5-5_arm64.buildinfo dpkg-genchanges --build=binary -O../ctdopts_1.5-5_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/3598301 and its subdirectories I: Current time: Sat Sep 14 03:09:28 -12 2024 I: pbuilder-time-stamp: 1726326568 Sat Sep 14 15:09:31 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink01-arm64.debian.net. Sat Sep 14 15:09:31 UTC 2024 I: Preparing to do remote build '2' on codethink01-arm64.debian.net. Sat Sep 14 15:10:58 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. Sat Sep 14 15:10:58 UTC 2024 I: ctdopts_1.5-5_arm64.changes: Format: 1.8 Date: Fri, 13 Sep 2024 12:35:10 +0200 Source: ctdopts Binary: python3-ctdopts Architecture: all Version: 1.5-5 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Alexandre Detiste Description: python3-ctdopts - Gives your Python tools a CTD-compatible interface Changes: ctdopts (1.5-5) unstable; urgency=medium . * Team upload. * Drop 2to3 usage fro autopkgtest too. Checksums-Sha1: 876ce4bffa6b248390ad7a22e1b611a1c621fa7a 5685 ctdopts_1.5-5_arm64.buildinfo 15d35c37f5e63e531e26abdfb3837e5a72855204 22536 python3-ctdopts_1.5-5_all.deb Checksums-Sha256: 4947d7c081d868740ce1ef1fcad320e18a3c52fac2b20ab623cccb5d4cdd2158 5685 ctdopts_1.5-5_arm64.buildinfo c3a5fddfec5f61072ae5ee4acd4c6af6571629596ed8715e28c62bddf075be22 22536 python3-ctdopts_1.5-5_all.deb Files: b279a20e4ce44bcc380a8d15bd8c1ca5 5685 python optional ctdopts_1.5-5_arm64.buildinfo a4c82b46b1be40e07f31bfb52257aac1 22536 python optional python3-ctdopts_1.5-5_all.deb Sat Sep 14 15:10:59 UTC 2024 I: diffoscope 277 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_6-57478.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.sCZwn2kQ/ctdopts_1.5-5.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.sCZwn2kQ/ctdopts_1.5-5.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.sCZwn2kQ/ctdopts_1.5-5.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.sCZwn2kQ/b1/ctdopts_1.5-5_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.sCZwn2kQ/b2/ctdopts_1.5-5_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.388s) 0.388s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.015s) 0.015s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 723ms CPU time consumed: 724ms Sat Sep 14 15:11:01 UTC 2024 I: diffoscope 277 found no differences in the changes files, and a .buildinfo file also exists. Sat Sep 14 15:11:01 UTC 2024 I: ctdopts from unstable built successfully and reproducibly on arm64. Sat Sep 14 15:11:02 UTC 2024 I: Submitting .buildinfo files to external archives: Sat Sep 14 15:11:02 UTC 2024 I: Submitting 8.0K b1/ctdopts_1.5-5_arm64.buildinfo.asc Sat Sep 14 15:11:03 UTC 2024 I: Submitting 8.0K b2/ctdopts_1.5-5_arm64.buildinfo.asc Sat Sep 14 15:11:03 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Sep 14 15:11:03 UTC 2024 I: Done submitting .buildinfo files. Sat Sep 14 15:11:03 UTC 2024 I: Removing signed ctdopts_1.5-5_arm64.buildinfo.asc files: removed './b1/ctdopts_1.5-5_arm64.buildinfo.asc' removed './b2/ctdopts_1.5-5_arm64.buildinfo.asc'