Thu Oct 17 00:26:26 UTC 2024 I: starting to build propka/unstable/amd64 on jenkins on '2024-10-17 00:26' Thu Oct 17 00:26:26 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_36/32475/console.log Thu Oct 17 00:26:26 UTC 2024 I: Downloading source for unstable/propka=3.5.1-2 --2024-10-17 00:26:26-- http://deb.debian.org/debian/pool/main/p/propka/propka_3.5.1-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2286 (2.2K) [text/prs.lines.tag] Saving to: ‘propka_3.5.1-2.dsc’ 0K .. 100% 284M=0s 2024-10-17 00:26:26 (284 MB/s) - ‘propka_3.5.1-2.dsc’ saved [2286/2286] Thu Oct 17 00:26:27 UTC 2024 I: propka_3.5.1-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: propka Binary: python-propka-doc, python3-propka Architecture: all Version: 3.5.1-2 Maintainer: Debian Med Packaging Team Uploaders: Andrius Merkys , Homepage: http://propka.org Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/propka Vcs-Git: https://salsa.debian.org/med-team/propka.git Testsuite: autopkgtest-pkg-pybuild Build-Depends: debhelper-compat (= 13), dh-python, dh-sequence-sphinxdoc, help2man, python3-all, python3-numpy , python3-pytest , python3-setuptools, python3-sphinx-rtd-theme Package-List: python-propka-doc deb doc optional arch=all python3-propka deb python optional arch=all Checksums-Sha1: 241b6ed50556bfc2e88722796c63bd29bb69984b 376186 propka_3.5.1.orig.tar.gz 590ae002720155a7d99b57e15beca93f27c0837f 5096 propka_3.5.1-2.debian.tar.xz Checksums-Sha256: 3137c08e2c64f982a64e5a94740a76d4c4766bd0971c670c268ac6c227330f66 376186 propka_3.5.1.orig.tar.gz 135f5b6d23ad6bdeb5004dd2ffc1a3b36c1776b428002bcc82c69683aa529b2d 5096 propka_3.5.1-2.debian.tar.xz Files: 9aec20948f291f267164a15c45b159f3 376186 propka_3.5.1.orig.tar.gz 079bbb193a5d6c45312bf925368868b6 5096 propka_3.5.1-2.debian.tar.xz Dgit: a0f1e910d846b8519fdefabc20b7910dc55d26e8 debian archive/debian/3.5.1-2 https://git.dgit.debian.org/propka -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmcP0hkUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdru2RAAyBRcGXMGPNh+uKQxyBPWkCRVMrbj hcrSVCTezS53TYZDCXq/bdOx5oUa6nWTS8i9ZrZlu7k2lokPOL9nY5MV/s4z7Y0Y xPHCghxr2JdbAWHCL+62C8WV7mX1XD8YvAOfgbdtJKvvW4kYIyKysrn+JPSr3+HF rDdnJKil80Eya6NDnzXVBoeXcB2kLrqTiu3b1Ixw3B3KYz6mfTiDIaH9iG82RtZ2 2ECUv9UyC/IOQqx8XFbE12HyRe9Ny4aK+XHly8Sq08FeHgeaOSAmMBJ91BU5LsmA UEmZit+b0Opbp8Xg7C7WjgNlyDDnQumdnRY/nRlajsjMe1xah/b1p9fPcl7y0rPK YprrKmeprRLg0VxVhZxH1l9Vuims+wV9UIFQUpbVJXVKTQCHOP+1G73ygzVcVE7S 5w6In+QG/i9QoVhinRMroBlFc01dQHZwHR4RPs7MQcfA7lI1Mxke9eNCZqTCyZM4 g8eB4Y2S9Hcmubl2u99upNe3qfPMwIzYTNiuI5SdHxB7Zq8CvfbrFv7xWd9WIXlN mvKZUL5kv5iwLBp7TjH3LWCRUZPt4OFaboStbbbbzDEaTlG4hO1gRFzs/Iqnultw O09hA+FUPpclwBLBr4ciZhg/P/zWLY5jrZulz1L9NLaqhPBWLvRBXF4xu77MwVhz +naa+njYriG3NYs= =vmfW -----END PGP SIGNATURE----- Thu Oct 17 00:26:27 UTC 2024 I: Checking whether the package is not for us Thu Oct 17 00:26:27 UTC 2024 I: Starting 1st build on remote node infom02-amd64.debian.net. Thu Oct 17 00:26:27 UTC 2024 I: Preparing to do remote build '1' on infom02-amd64.debian.net. Thu Oct 17 00:29:11 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Nov 18 18:49:29 -12 2025 I: pbuilder-time-stamp: 1763534969 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 [propka_3.5.1-2.dsc] I: copying [./propka_3.5.1.orig.tar.gz] I: copying [./propka_3.5.1-2.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Oct 16 14:47:53 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./propka_3.5.1-2.dsc: no acceptable signature found dpkg-source: info: extracting propka in propka-3.5.1 dpkg-source: info: unpacking propka_3.5.1.orig.tar.gz dpkg-source: info: unpacking propka_3.5.1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no-sphinx-sitemap.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/347416/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='0750790f1a194f868ac4f6ab77a8ded1' 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='347416' 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.SpkPFAyd/pbuilderrc_BmBT --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.SpkPFAyd/b1 --logfile b1/build.log propka_3.5.1-2.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' I: uname -a Linux infom02-amd64 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/347416/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: amd64 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, dh-sequence-sphinxdoc, help2man, python3-all, python3-numpy, python3-pytest, python3-setuptools, python3-sphinx-rtd-theme dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19944 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 dh-sequence-sphinxdoc; however: Package dh-sequence-sphinxdoc is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-rtd-theme; however: Package python3-sphinx-rtd-theme 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} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fonts-font-awesome{a} fonts-lato{a} gettext{a} gettext-base{a} groff-base{a} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libcom-err2{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgssapi-krb5-2{a} libicu72{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblocale-gettext-perl{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} openssl{a} po-debconf{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-iniconfig{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-packaging{a} python3-pkg-resources{a} python3-pluggy{a} python3-pygments{a} python3-pytest{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-sphinx-rtd-theme{a} python3-sphinxcontrib.jquery{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} sphinx-rtd-theme-common{a} tzdata{a} xml-core{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common krb5-locales libarchive-cpio-perl libjson-xs-perl libltdl-dev libmail-sendmail-perl libpaper-utils lynx python3-pil wget 0 packages upgraded, 106 newly installed, 0 to remove and 0 not upgraded. Need to get 52.2 MB of archives. After unpacking 216 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 fonts-lato all 2.015-1 [2780 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-7+b1 [15.3 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.7-1 [814 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.3-1 [105 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.7-1 [2162 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.6-1 [26.7 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-3 [255 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get: 14 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.7-1 [1965 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.7-1 [671 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get: 24 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 sgml-base all 1.31 [15.4 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.3.2-1 [1381 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20240203 [158 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 49 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.3.0-1 [36.5 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 63 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 74.1.2-2 [213 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.20.2-1 [10.3 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 74.1.2-2 [736 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20240824 [109 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 xml-core all 0.19 [20.1 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 help2man amd64 1.49.3 [198 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-6 [836 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 7.4.7-3 [158 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 python-babel-localedata all 2.14.0-1 [5701 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.6-1 [1040 B] Get: 82 http://deb.debian.org/debian unstable/main amd64 python3-babel all 2.14.0-1 [111 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2024.8.30+dfsg-1 [9576 B] Get: 84 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer amd64 3.3.2-4 [117 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 python3-defusedxml all 0.7.1-2 [43.3 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 python3-roman all 4.2-1 [10.4 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.8-2 [41.6 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 python3-imagesize all 1.4.1-1 [6688 B] Get: 91 http://deb.debian.org/debian unstable/main amd64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 92 http://deb.debian.org/debian unstable/main amd64 python3-markupsafe amd64 2.1.5-1+b1 [13.6 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 python3-jinja2 all 3.1.3-1 [119 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 python3-numpy amd64 1:1.26.4+ds-11 [4236 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 24.1-1 [45.8 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 python3-pygments all 2.18.0+dfsg-1 [836 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 python3-pytest all 8.3.3-1 [249 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 2.0.7-2 [111 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.32.3+dfsg-1 [71.9 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 python3-snowballstemmer all 2.2.0-4 [58.0 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 sphinx-common all 7.4.7-3 [731 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 python3-sphinx all 7.4.7-3 [588 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 sphinx-rtd-theme-common all 2.0.0+dfsg-2 [1021 kB] Get: 105 http://deb.debian.org/debian unstable/main amd64 python3-sphinxcontrib.jquery all 4.1-5 [7348 B] Get: 106 http://deb.debian.org/debian unstable/main amd64 python3-sphinx-rtd-theme all 2.0.0+dfsg-2 [28.5 kB] Fetched 52.2 MB in 1s (48.3 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 ... 19944 files and directories currently installed.) Preparing to unpack .../fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../liblocale-gettext-perl_1.07-7+b1_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-7+b1) ... Selecting previously unselected package libpython3.12-minimal:amd64. 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Setting up liblapack3:amd64 (3.12.0-3) ... 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 gettext (0.22.5-2) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libjs-sphinxdoc (7.4.7-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up xml-core (0.19) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up sphinx-common (7.4.7-3) ... 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Setting up python3-defusedxml (0.7.1-2) ... Setting up python3-charset-normalizer (3.3.2-4) ... Setting up python3-pytest (8.3.3-1) ... Setting up python3-alabaster (0.7.16-0.1) ... Setting up python3-typeguard (4.3.0-1) ... Setting up python3-all (3.12.6-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-pkg-resources (74.1.2-2) ... Setting up python3-setuptools (74.1.2-2) ... Setting up python3-babel (2.14.0-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-pygments (2.18.0+dfsg-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-requests (2.32.3+dfsg-1) ... Setting up python3-numpy (1:1.26.4+ds-11) ... Setting up dh-python (6.20240824) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.21.2+dfsg-2) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.21.2+dfsg-2) ... Setting up python3-sphinx (7.4.7-3) ... Setting up python3-sphinxcontrib.jquery (4.1-5) ... Setting up python3-sphinx-rtd-theme (2.0.0+dfsg-2) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/propka-3.5.1/ && 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 > ../propka_3.5.1-2_source.changes dpkg-buildpackage: info: source package propka dpkg-buildpackage: info: source version 3.5.1-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 dpkg-source: info: using options from propka-3.5.1/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem pybuild --with python3 dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py clean /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running clean removing '/build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/propka-3.5.1' rm -rf docs/source/api propka.egg-info make[1]: Leaving directory '/build/reproducible-path/propka-3.5.1' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem pybuild --with python3 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 /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running build running build_py creating /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/vector_algebra.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/group.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/ligand.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/coupled_groups.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/conformation_container.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/determinants.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/bonds.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/parameters.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/molecular_container.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/run.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/energy.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/__main__.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/input.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/protonate.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/output.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/ligand_pka_values.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/hybrid36.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/__init__.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/calculations.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/lib.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/atom.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/iterative.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/version.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/hydrogens.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/determinant.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/_version.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka creating /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_version.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_molecular_container.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_protonate.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_run.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/__init__.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_streamio.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_hybrid36.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_input.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_basic_regression.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_vector_algebra.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying tests/test_lib.py -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests copying propka/py.typed -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/propka.cfg -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka copying propka/protein_bonds.json -> /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka UPDATING /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/_version.py set /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/_version.py to '3.5.1' debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/reproducible-path/propka-3.5.1' PYTHONPATH=. python3 -m sphinx -N -bhtml docs/source build/html Running Sphinx v7.4.7 loading translations [en]... done WARNING: html_static_path entry '_static' does not exist loading intersphinx inventory 'python' from https://docs.python.org/3/objects.inv... WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'https://docs.python.org/3/objects.inv' not fetchable due to : HTTPSConnectionPool(host='docs.python.org', port=443): Max retries exceeded with url: /3/objects.inv (Caused by ProxyError('Unable to connect to proxy', NewConnectionError(': Failed to establish a new connection: [Errno 111] Connection refused'))) [autosummary] generating autosummary for: api.rst, changelog.rst, command.rst, index.rst, installation.rst, quickstart.rst, references.rst [autosummary] generating autosummary for: /build/reproducible-path/propka-3.5.1/docs/source/api/propka.atom.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.bonds.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.calculations.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.conformation_container.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.coupled_groups.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.determinant.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.determinants.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.energy.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.group.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.hybrid36.rst, ..., /build/reproducible-path/propka-3.5.1/docs/source/api/propka.lib.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.ligand.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.ligand_pka_values.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.molecular_container.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.output.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.parameters.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.protonate.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.run.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.vector_algebra.rst, /build/reproducible-path/propka-3.5.1/docs/source/api/propka.version.rst building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 7 source files that are out of date updating environment: [new config] 30 added, 0 changed, 0 removed reading sources... [ 3%] api reading sources... [ 7%] api/propka.atom reading sources... [ 10%] api/propka.bonds reading sources... [ 13%] api/propka.calculations reading sources... [ 17%] api/propka.conformation_container reading sources... [ 20%] api/propka.coupled_groups reading sources... [ 23%] api/propka.determinant reading sources... [ 27%] api/propka.determinants reading sources... [ 30%] api/propka.energy reading sources... [ 33%] api/propka.group reading sources... [ 37%] api/propka.hybrid36 reading sources... [ 40%] api/propka.hydrogens reading sources... [ 43%] api/propka.input reading sources... [ 47%] api/propka.iterative reading sources... [ 50%] api/propka.lib reading sources... [ 53%] api/propka.ligand reading sources... [ 57%] api/propka.ligand_pka_values reading sources... [ 60%] api/propka.molecular_container reading sources... [ 63%] api/propka.output reading sources... [ 67%] api/propka.parameters reading sources... [ 70%] api/propka.protonate reading sources... [ 73%] api/propka.run reading sources... [ 77%] api/propka.vector_algebra reading sources... [ 80%] api/propka.version reading sources... [ 83%] changelog reading sources... [ 87%] command reading sources... [ 90%] index reading sources... [ 93%] installation reading sources... [ 97%] quickstart reading sources... [100%] references /build/reproducible-path/propka-3.5.1/propka/iterative.py:docstring of propka.iterative.add_to_determinant_list:7: WARNING: Definition list ends without a blank line; unexpected unindent. looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done copying assets... copying static files... done copying extra files... done copying assets: done writing output... [ 3%] api writing output... [ 7%] api/propka.atom writing output... [ 10%] api/propka.bonds writing output... [ 13%] api/propka.calculations writing output... [ 17%] api/propka.conformation_container writing output... [ 20%] api/propka.coupled_groups writing output... [ 23%] api/propka.determinant writing output... [ 27%] api/propka.determinants writing output... [ 30%] api/propka.energy writing output... [ 33%] api/propka.group writing output... [ 37%] api/propka.hybrid36 writing output... [ 40%] api/propka.hydrogens writing output... [ 43%] api/propka.input writing output... [ 47%] api/propka.iterative writing output... [ 50%] api/propka.lib writing output... [ 53%] api/propka.ligand writing output... [ 57%] api/propka.ligand_pka_values writing output... [ 60%] api/propka.molecular_container writing output... [ 63%] api/propka.output writing output... [ 67%] api/propka.parameters writing output... [ 70%] api/propka.protonate writing output... [ 73%] api/propka.run writing output... [ 77%] api/propka.vector_algebra writing output... [ 80%] api/propka.version writing output... [ 83%] changelog writing output... [ 87%] command writing output... [ 90%] index writing output... [ 93%] installation writing output... [ 97%] quickstart writing output... [100%] references generating indices... genindex py-modindex done highlighting module code... [ 4%] propka.atom highlighting module code... [ 9%] propka.bonds highlighting module code... [ 13%] propka.calculations highlighting module code... [ 17%] propka.conformation_container highlighting module code... [ 22%] propka.coupled_groups highlighting module code... [ 26%] propka.determinant highlighting module code... [ 30%] propka.determinants highlighting module code... [ 35%] propka.energy highlighting module code... [ 39%] propka.group highlighting module code... [ 43%] propka.hybrid36 highlighting module code... [ 48%] propka.hydrogens highlighting module code... [ 52%] propka.input highlighting module code... [ 57%] propka.iterative highlighting module code... [ 61%] propka.lib highlighting module code... [ 65%] propka.ligand highlighting module code... [ 70%] propka.ligand_pka_values highlighting module code... [ 74%] propka.molecular_container highlighting module code... [ 78%] propka.output highlighting module code... [ 83%] propka.parameters highlighting module code... [ 87%] propka.protonate highlighting module code... [ 91%] propka.run highlighting module code... [ 96%] propka.vector_algebra highlighting module code... [100%] propka.version writing additional pages... search done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 3 warnings. The HTML pages are in build/html. PYTHONPATH=. python3 -m sphinx -N -bman docs/source build/man Running Sphinx v7.4.7 loading translations [en]... done WARNING: html_static_path entry '_static' does not exist loading intersphinx inventory 'python' from https://docs.python.org/3/objects.inv... WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'https://docs.python.org/3/objects.inv' not fetchable due to : HTTPSConnectionPool(host='docs.python.org', port=443): Max retries exceeded with url: /3/objects.inv (Caused by ProxyError('Unable to connect to proxy', NewConnectionError(': Failed to establish a new connection: [Errno 111] Connection refused'))) [autosummary] generating autosummary for: api.rst, api/propka.atom.rst, api/propka.bonds.rst, api/propka.calculations.rst, api/propka.conformation_container.rst, api/propka.coupled_groups.rst, api/propka.determinant.rst, api/propka.determinants.rst, api/propka.energy.rst, api/propka.group.rst, ..., api/propka.protonate.rst, api/propka.run.rst, api/propka.vector_algebra.rst, api/propka.version.rst, changelog.rst, command.rst, index.rst, installation.rst, quickstart.rst, references.rst building [mo]: targets for 0 po files that are out of date writing output... building [man]: all manpages updating environment: [new config] 30 added, 0 changed, 0 removed reading sources... [ 3%] api reading sources... [ 7%] api/propka.atom reading sources... [ 10%] api/propka.bonds reading sources... [ 13%] api/propka.calculations reading sources... [ 17%] api/propka.conformation_container reading sources... [ 20%] api/propka.coupled_groups reading sources... [ 23%] api/propka.determinant reading sources... [ 27%] api/propka.determinants reading sources... [ 30%] api/propka.energy reading sources... [ 33%] api/propka.group reading sources... [ 37%] api/propka.hybrid36 reading sources... [ 40%] api/propka.hydrogens reading sources... [ 43%] api/propka.input reading sources... [ 47%] api/propka.iterative reading sources... [ 50%] api/propka.lib reading sources... [ 53%] api/propka.ligand reading sources... [ 57%] api/propka.ligand_pka_values reading sources... [ 60%] api/propka.molecular_container reading sources... [ 63%] api/propka.output reading sources... [ 67%] api/propka.parameters reading sources... [ 70%] api/propka.protonate reading sources... [ 73%] api/propka.run reading sources... [ 77%] api/propka.vector_algebra reading sources... [ 80%] api/propka.version reading sources... [ 83%] changelog reading sources... [ 87%] command reading sources... [ 90%] index reading sources... [ 93%] installation reading sources... [ 97%] quickstart reading sources... [100%] references /build/reproducible-path/propka-3.5.1/propka/iterative.py:docstring of propka.iterative.add_to_determinant_list:7: WARNING: Definition list ends without a blank line; unexpected unindent. looking for now-outdated files... none found pickling environment... done checking consistency... done writing... propka3.1 { installation quickstart command api api/propka.atom api/propka.bonds api/propka.group api/propka.conformation_container api/propka.molecular_container api/propka.input api/propka.lib api/propka.output api/propka.parameters api/propka.hybrid36 api/propka.ligand_pka_values api/propka.run api/propka.version api/propka.protonate api/propka.hydrogens api/propka.ligand api/propka.calculations api/propka.coupled_groups api/propka.determinant api/propka.determinants api/propka.energy api/propka.iterative api/propka.vector_algebra changelog references } done build succeeded, 3 warnings. The manual pages are in build/man. make[1]: Leaving directory '/build/reproducible-path/propka-3.5.1' dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build; python3.12 -m pytest -k 'not test_molecular_container' ============================= test session starts ============================== platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 rootdir: /build/reproducible-path/propka-3.5.1 plugins: typeguard-4.3.0 collected 49 items / 2 deselected / 47 selected tests/test_basic_regression.py ....... [ 14%] tests/test_hybrid36.py .. [ 19%] tests/test_input.py .. [ 23%] tests/test_lib.py .. [ 27%] tests/test_protonate.py . [ 29%] tests/test_run.py ........ [ 46%] tests/test_streamio.py ........ [ 63%] tests/test_vector_algebra.py ............... [ 95%] tests/test_version.py .. [100%] ======================= 47 passed, 2 deselected in 5.82s ======================= create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/propka-3.5.1/debian/python3-propka /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:261: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) running install /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() running build running build_py UPDATING /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/_version.py set /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/_version.py to '3.5.1' running install_lib creating /build/reproducible-path/propka-3.5.1/debian/python3-propka creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12 creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/vector_algebra.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/group.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/ligand.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/coupled_groups.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/conformation_container.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/determinants.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/bonds.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/parameters.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/molecular_container.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/run.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/protein_bonds.json -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/energy.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__main__.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/input.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/protonate.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/output.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/ligand_pka_values.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/hybrid36.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__init__.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/calculations.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/lib.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/atom.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/propka.cfg -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/iterative.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/version.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/hydrogens.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/determinant.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/_version.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/input.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/version.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/vector_algebra.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/group.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/bonds.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/protonate.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/hybrid36.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/energy.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/determinants.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/ligand.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/calculations.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/molecular_container.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/hydrogens.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/output.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/determinant.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/atom.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/ligand_pka_values.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/iterative.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/run.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/parameters.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/coupled_groups.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/lib.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/conformation_container.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/__pycache__/_version.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/propka/py.typed -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_version.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_molecular_container.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_protonate.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_run.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__init__.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_streamio.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_hybrid36.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_input.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_basic_regression.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests creating /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_lib.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_molecular_container.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_version.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_protonate.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_basic_regression.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_run.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_vector_algebra.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_streamio.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_hybrid36.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/test_input.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__pycache__ copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_vector_algebra.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests copying /build/reproducible-path/propka-3.5.1/.pybuild/cpython3_3.12_propka/build/tests/test_lib.py -> /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/vector_algebra.py to vector_algebra.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/group.py to group.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/ligand.py to ligand.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/coupled_groups.py to coupled_groups.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/conformation_container.py to conformation_container.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/determinants.py to determinants.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/bonds.py to bonds.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/parameters.py to parameters.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/molecular_container.py to molecular_container.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/run.py to run.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/energy.py to energy.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__main__.py to __main__.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/input.py to input.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/protonate.py to protonate.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/output.py to output.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/ligand_pka_values.py to ligand_pka_values.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/hybrid36.py to hybrid36.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/calculations.py to calculations.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/lib.py to lib.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/atom.py to atom.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/iterative.py to iterative.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/version.py to version.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/hydrogens.py to hydrogens.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/determinant.py to determinant.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka/_version.py to _version.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_version.py to test_version.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_molecular_container.py to test_molecular_container.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_protonate.py to test_protonate.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_run.py to test_run.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_streamio.py to test_streamio.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_hybrid36.py to test_hybrid36.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_input.py to test_input.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_basic_regression.py to test_basic_regression.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_vector_algebra.py to test_vector_algebra.cpython-312.pyc byte-compiling /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/tests/test_lib.py to test_lib.cpython-312.pyc running install_egg_info running egg_info creating propka.egg-info writing propka.egg-info/PKG-INFO writing dependency_links to propka.egg-info/dependency_links.txt writing entry points to propka.egg-info/entry_points.txt writing top-level names to propka.egg-info/top_level.txt writing manifest file 'propka.egg-info/SOURCES.txt' reading manifest file 'propka.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'INSTALL' warning: no files found matching 'propka.cfg' adding license file 'LICENSE' writing manifest file 'propka.egg-info/SOURCES.txt' Copying propka.egg-info to /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/lib/python3.12/dist-packages/propka-3.5.1.egg-info Skipping SOURCES.txt running install_scripts Installing propka3 script to /build/reproducible-path/propka-3.5.1/debian/python3-propka/usr/bin dh_installdocs -O--buildsystem=pybuild debian/rules execute_after_dh_installdocs make[1]: Entering directory '/build/reproducible-path/propka-3.5.1' dh_installdocs -p python-propka-doc --doc-main-package python3-propka build/html make[1]: Leaving directory '/build/reproducible-path/propka-3.5.1' dh_sphinxdoc -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild debian/rules execute_before_dh_installman make[1]: Entering directory '/build/reproducible-path/propka-3.5.1' PYTHONPATH=. help2man debian/python3-propka/usr/bin/propka3 --no-info \ --name 'predict pKa values of ionizable groups' > propka3.1 make[1]: Leaving directory '/build/reproducible-path/propka-3.5.1' dh_installman -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 dpkg-gencontrol: warning: package python-propka-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python-propka-doc' in '../python-propka-doc_3.5.1-2_all.deb'. dpkg-deb: building package 'python3-propka' in '../python3-propka_3.5.1-2_all.deb'. dpkg-genbuildinfo --build=binary -O../propka_3.5.1-2_amd64.buildinfo dpkg-genchanges --build=binary -O../propka_3.5.1-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from propka-3.5.1/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ 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/347416 and its subdirectories I: Current time: Tue Nov 18 18:52:10 -12 2025 I: pbuilder-time-stamp: 1763535130 Thu Oct 17 00:29:12 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom01-amd64.debian.net. Thu Oct 17 00:29:12 UTC 2024 I: Preparing to do remote build '2' on infom01-amd64.debian.net. Thu Oct 17 00:32:00 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. Thu Oct 17 00:32:01 UTC 2024 I: propka_3.5.1-2_amd64.changes: Format: 1.8 Date: Wed, 16 Oct 2024 16:10:44 +0200 Source: propka Binary: python-propka-doc python3-propka Architecture: all Version: 3.5.1-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: python-propka-doc - heuristic pKa calculations with ligands (documentation) python3-propka - heuristic pKa calculations with ligands (Python 3) Closes: 1083559 Changes: propka (3.5.1-2) unstable; urgency=medium . * Team upload. * d/control: remove dependency on python3-pkg-resources. According to upstream changelog, manual inspection in the source code, and autopkgtest run, this module is not needed anymore. (Closes: #1083559) * d/control: declare compliance to standards version 4.7.0. Checksums-Sha1: f0dfcd8a34725e7e2ca06738cda05e885d4e7bc9 7420 propka_3.5.1-2_amd64.buildinfo 418d1e4d521c277655e4c7b0063ff1c852b43345 166628 python-propka-doc_3.5.1-2_all.deb a0f97b132575da1c93c697bcb3c684ebdf60c2e5 68192 python3-propka_3.5.1-2_all.deb Checksums-Sha256: f7074abdaa39a01d59adfe8fd2f570c1fde730bf05b2ce2537f82e0f654a74d7 7420 propka_3.5.1-2_amd64.buildinfo 40375e21186ae5e99c1bd056199ca55457e6f6eb526605ca5f51341473f62941 166628 python-propka-doc_3.5.1-2_all.deb 2b1d21c211e6f1e3706cb34ee3fae4ecc47eb4f4ab1120155d617b9355f9123f 68192 python3-propka_3.5.1-2_all.deb Files: 6d33cc65f8a48f3a7ac274234ad991c6 7420 science optional propka_3.5.1-2_amd64.buildinfo 4806d1cc31785ddf684f3cf402839856 166628 doc optional python-propka-doc_3.5.1-2_all.deb 58ded2d4b16bbf5a6b42e218d85f246e 68192 python optional python3-propka_3.5.1-2_all.deb Thu Oct 17 00:32:02 UTC 2024 I: diffoscope 280 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_36-32475.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.SpkPFAyd/propka_3.5.1-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.SpkPFAyd/propka_3.5.1-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.SpkPFAyd/propka_3.5.1-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.SpkPFAyd/b1/propka_3.5.1-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.SpkPFAyd/b2/propka_3.5.1-2_amd64.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: 0.389s) 0.389s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.020s) 0.020s 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: 777ms CPU time consumed: 776ms Thu Oct 17 01:06:58 UTC 2024 I: diffoscope 280 found no differences in the changes files, and a .buildinfo file also exists. Thu Oct 17 01:06:58 UTC 2024 I: propka from unstable built successfully and reproducibly on amd64. Thu Oct 17 01:07:02 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Oct 17 01:07:02 UTC 2024 I: Submitting 12K b1/propka_3.5.1-2_amd64.buildinfo.asc Thu Oct 17 01:07:08 UTC 2024 I: Submitting 12K b2/propka_3.5.1-2_amd64.buildinfo.asc Thu Oct 17 01:07:35 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Oct 17 01:07:35 UTC 2024 I: Done submitting .buildinfo files. Thu Oct 17 01:07:35 UTC 2024 I: Removing signed propka_3.5.1-2_amd64.buildinfo.asc files: removed './b1/propka_3.5.1-2_amd64.buildinfo.asc' removed './b2/propka_3.5.1-2_amd64.buildinfo.asc'