Wed Sep 10 07:35:23 UTC 2025 I: starting to build resfinder/forky/amd64 on jenkins on '2025-09-10 07:35' Wed Sep 10 07:35:23 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_21/55647/console.log Wed Sep 10 07:35:23 UTC 2025 I: Downloading source for forky/resfinder=4.4.2-2 --2025-09-10 07:35:23-- http://deb.debian.org/debian/pool/main/r/resfinder/resfinder_4.4.2-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2148 (2.1K) [text/prs.lines.tag] Saving to: ‘resfinder_4.4.2-2.dsc’ 0K .. 100% 243M=0s 2025-09-10 07:35:23 (243 MB/s) - ‘resfinder_4.4.2-2.dsc’ saved [2148/2148] Wed Sep 10 07:35:23 UTC 2025 I: resfinder_4.4.2-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: resfinder Binary: resfinder, resfinder-example Architecture: all Version: 4.4.2-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://bitbucket.org/genomicepidemiology/resfinder Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/resfinder Vcs-Git: https://salsa.debian.org/med-team/resfinder.git Testsuite: autopkgtest Testsuite-Triggers: resfinder-db Build-Depends: debhelper-compat (= 13), dh-sequence-python3, pybuild-plugin-pyproject, python3, python3-cgelib, python3-pdm-backend Package-List: resfinder deb science optional arch=all resfinder-example deb science optional arch=all Checksums-Sha1: 4ded8b00e252189c738c3f021ad65995c480409a 89052 resfinder_4.4.2.orig-debian-tests-data.tar.xz 1dca572e57826d2acfb7da9a3036771d7e7c7f7f 359460 resfinder_4.4.2.orig.tar.xz 0703daec06aa939fd01a1d3ad394d68d5d898eb3 8744 resfinder_4.4.2-2.debian.tar.xz Checksums-Sha256: 3ef38a2a7361e887e9d1f8037f90154242f7b7801b2a0beb4410fba9fb0d8831 89052 resfinder_4.4.2.orig-debian-tests-data.tar.xz b1481247fb9c2ec50cae9995f6a448028c40ea26619a5aab84155d6c6569ae19 359460 resfinder_4.4.2.orig.tar.xz 40e3d82425b5431bb036d40794a6b17a8ff2af4c765767b7cb98a29c170a9928 8744 resfinder_4.4.2-2.debian.tar.xz Files: c65eabcad59f985e94f95e50b7c93971 89052 resfinder_4.4.2.orig-debian-tests-data.tar.xz 740cf166b9715268e7e49a9dc572ba03 359460 resfinder_4.4.2.orig.tar.xz c728af24d7b6b75088284150ce773f1b 8744 resfinder_4.4.2-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEE1Uw7+v+wQt44LaXXQc5/C58bizIFAmcpY+cACgkQQc5/C58b izIRowgAimp6zgVxBEU8N73uN0m/vDa9Bsgv0X8JuF7qU9rk70a7D/jFXU1kh/qm JSNJmo18QIdWoPvLnOfskVAJi4Drv5T3EisB5hE26Rz2YKmNcpGz8ORoDB+5BjbY QWSLPgdrQ1cJ1KR3BzpKhctUxoKmFie42RIEtX1d71eTsemSM4wjkSD+2gJbLEUf l1HkG1FpvivRub3o2oHezuT8GuznT8IKEwKjj7BFt2SZZMPx+TByEsYIbTcCcuk4 rbHATIDUmTaOJj+BeDl/h0BQCfrXKQc4v34715/iCTqt+xYVMA7nnWazTCTyP95V ar27hWS8S5tEibzkL7wuuCFdHhxXvg== =TTQA -----END PGP SIGNATURE----- Wed Sep 10 07:35:23 UTC 2025 I: Checking whether the package is not for us Wed Sep 10 07:35:23 UTC 2025 I: Starting 1st build on remote node ionos11-amd64.debian.net. Wed Sep 10 07:35:23 UTC 2025 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Wed Sep 10 07:40:24 UTC 2025 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Sep 9 19:35:24 -12 2025 I: pbuilder-time-stamp: 1757489724 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-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 [resfinder_4.4.2-2.dsc] I: copying [./resfinder_4.4.2.orig-debian-tests-data.tar.xz] I: copying [./resfinder_4.4.2.orig.tar.xz] I: copying [./resfinder_4.4.2-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./resfinder_4.4.2-2.dsc: no acceptable signature found dpkg-source: info: extracting resfinder in resfinder-4.4.2 dpkg-source: info: unpacking resfinder_4.4.2.orig.tar.xz dpkg-source: info: unpacking resfinder_4.4.2.orig-debian-tests-data.tar.xz dpkg-source: info: unpacking resfinder_4.4.2-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_path_in_testscript.patch dpkg-source: info: applying fix-shebang.patch dpkg-source: info: applying mut-type.patch dpkg-source: info: applying pyproject.toml-Migrate-to-pdm-backend.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/900687/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=40 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='c6bcee22b3fe45fb89082b131db5c738' 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='900687' 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.ZBbso9QI/pbuilderrc_XEwI --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZBbso9QI/b1 --logfile b1/build.log resfinder_4.4.2-2.dsc' SUDO_GID='111' SUDO_HOME='/var/lib/jenkins' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.12.43+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.43-1 (2025-08-27) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/900687/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-sequence-python3, pybuild-plugin-pyproject, python3, python3-cgelib, python3-pdm-backend dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19898 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-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-cgelib; however: Package python3-cgelib is not installed. pbuilder-satisfydepends-dummy depends on python3-pdm-backend; however: Package python3-pdm-backend 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} git{a} git-man{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libelf1t64{a} liberror-perl{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{a} libgssapi-krb5-2{a} libidn2-0{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libp11-kit0{a} libpipeline1{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} pybuild-plugin-pyproject{a} python3{a} python3-boolean{a} python3-build{a} python3-cerberus{a} python3-cgelib{a} python3-dateutil{a} python3-editables{a} python3-fastjsonschema{a} python3-git{a} python3-gitdb{a} python3-installer{a} python3-license-expression{a} python3-minimal{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pdm-backend{a} python3-pyparsing{a} python3-pyproject-hooks{a} python3-pyproject-metadata{a} python3-pytz{a} python3-smmap{a} python3-tomli-w{a} python3-validate-pyproject{a} python3-wheel{a} python3.13{a} python3.13-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 less libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx openssh-client publicsuffix python3-bottleneck python3-bs4 python3-html5lib python3-jinja2 python3-lxml python3-matplotlib python3-numba python3-numexpr python3-odf python3-openpyxl python3-scipy python3-tables python3-tz wget 0 packages upgraded, 98 newly installed, 0 to remove and 0 not upgraded. Need to get 51.7 MB of archives. After unpacking 230 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.1-2 [108 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.7-1 [864 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.7-1 [2216 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.5-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.4.8-2 [24.1 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-2 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-2 [180 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.7-1 [1960 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.5-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.5-1 [28.2 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 python3-numpy-dev amd64 1:2.2.4+ds-1 [139 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 libblas3 amd64 3.12.1-7 [215 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-2 [893 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 liblapack3 amd64 3.12.1-7 [2785 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 python3-numpy amd64 1:2.2.4+ds-1 [5096 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.1-2 [95.0 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-1 [324 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-5 [540 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.14.2-1 [19.8 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.14.2-1 [8768 B] Get: 41 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.9-3 [1465 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 59 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 69 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libcurl3t64-gnutls amd64 8.15.0-1 [385 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 liberror-perl all 0.17030-1 [26.9 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 git-man all 1:2.51.0-1 [2286 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 git amd64 1:2.51.0-1 [9259 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 python3-packaging all 25.0-1 [56.6 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 python3-wheel all 0.46.1-2 [21.7 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 python3-build all 1.2.2-4 [36.2 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 pybuild-plugin-pyproject all 6.20250414 [11.8 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 python3-boolean all 4.0-4 [22.6 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 python3-cerberus all 1.3.7-1 [34.3 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 python3-dateutil all 2.9.0-4 [79.4 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 python3-smmap all 6.0.0-1 [20.1 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 python3-gitdb all 4.0.12-1 [45.8 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 python3-git all 3.1.45-1 [147 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 python3-pytz all 2025.2-3 [152 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-9 [4595 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 python3-pandas all 2.2.3+dfsg-9 [3097 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 python3-cgelib all 0.7.3-3 [46.6 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 python3-editables all 0.5-2 [14.5 kB] Get: 92 http://deb.debian.org/debian forky/main amd64 python3-fastjsonschema all 2.21.1-1 [22.4 kB] Get: 93 http://deb.debian.org/debian forky/main amd64 python3-license-expression all 30.4.1-1 [96.9 kB] Get: 94 http://deb.debian.org/debian forky/main amd64 python3-pyproject-metadata all 0.9.1-2 [21.6 kB] Get: 95 http://deb.debian.org/debian forky/main amd64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 96 http://deb.debian.org/debian forky/main amd64 python3-tomli-w all 1.2.0-1 [9100 B] Get: 97 http://deb.debian.org/debian forky/main amd64 python3-validate-pyproject all 0.24.1-1 [39.5 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 python3-pdm-backend all 2.4.5+ds1-1 [35.2 kB] Fetched 51.7 MB in 6s (8070 kB/s) Preconfiguring packages ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.3-2) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_amd64.deb ... Unpacking python3.13 (3.13.7-1) ... Selecting previously unselected package libpython3-stdlib:amd64. 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Current default time zone: 'Etc/UTC' Local time is now: Wed Sep 10 07:39:18 UTC 2025. Universal Time is now: Wed Sep 10 07:39:18 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up liberror-perl (0.17030-1) ... Setting up autotools-dev (20240727.1) ... Setting up libblas3:amd64 (3.12.1-7) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libunistring5:amd64 (1.3-2) ... Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1) ... Setting up autopoint (0.23.1-2) ... Setting up libk5crypto3:amd64 (1.21.3-5) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Setting up libgfortran5:amd64 (15.2.0-2) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:amd64 (1.8.0-1) ... Setting up libffi8:amd64 (3.4.8-2) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up git-man (1:2.51.0-1) ... Setting up netbase (6.5) ... Setting up libngtcp2-16:amd64 (1.11.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up readline-common (8.3-2) ... Setting up libldap2:amd64 (2.6.10+dfsg-1) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.2-1) ... Setting up liblapack3:amd64 (3.12.1-7) ... 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 (0.23.1-2+b1) ... Setting up libtool (2.5.4-5) ... Setting up libidn2-0:amd64 (2.3.8-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libreadline8t64:amd64 (8.3-2) ... Setting up dh-strip-nondeterminism (1.14.2-1) ... Setting up groff-base (1.23.0-9) ... Setting up libpython3.13-stdlib:amd64 (3.13.7-1) ... Setting up libpython3-stdlib:amd64 (3.13.5-1) ... Setting up libgnutls30t64:amd64 (3.8.9-3) ... Setting up python3.13 (3.13.7-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up python3 (3.13.5-1) ... Setting up python3-editables (0.5-2) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-packaging (25.0-1) ... Setting up python3-pyproject-hooks (1.2.0-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up python3-installer (0.7.0+dfsg1-3) ... Setting up python3-fastjsonschema (2.21.1-1) ... Setting up python3-boolean (4.0-4) ... Setting up python3-license-expression (30.4.1-1) ... Setting up python3-dateutil (2.9.0-4) ... Setting up python3-tomli-w (1.2.0-1) ... Setting up python3-smmap (6.0.0-1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Setting up python3-validate-pyproject (0.24.1-1) ... Setting up dh-python (6.20250414) ... Setting up python3-pyproject-metadata (0.9.1-2) ... Setting up python3-cerberus (1.3.7-1) ... Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-9) ... Setting up libcurl3t64-gnutls:amd64 (8.15.0-1) ... Setting up debhelper (13.26) ... Setting up python3-pytz (2025.2-3) ... Setting up python3-gitdb (4.0.12-1) ... Setting up python3-pdm-backend (2.4.5+ds1-1) ... Setting up python3-wheel (0.46.1-2) ... Setting up python3-pandas (2.2.3+dfsg-9) ... Setting up git (1:2.51.0-1) ... Setting up python3-build (1.2.2-4) ... Setting up pybuild-plugin-pyproject (6.20250414) ... Setting up python3-git (3.1.45-1) ... Setting up python3-cgelib (0.7.3-3) ... Processing triggers for libc-bin (2.41-12) ... 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/resfinder-4.4.2/ && 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 > ../resfinder_4.4.2-2_source.changes dpkg-buildpackage: info: source package resfinder dpkg-buildpackage: info: source version 4.4.2-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Santiago Vila dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:129: Building wheel for python3.13 with "build" module I: pybuild base:311: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/resfinder-4.4.2/.pybuild/cpython3_3.13_resfinder * Building wheel... /usr/lib/python3/dist-packages/pyproject_metadata/__init__.py:293: ConfigurationWarning: The one-line summary "project.description" should not contain more than one line. Readers might merge or truncate newlines. self.validate() - Adding .pdm-build/resfinder-4.4.2.dist-info/METADATA -> resfinder-4.4.2.dist-info/METADATA - Adding .pdm-build/resfinder-4.4.2.dist-info/WHEEL -> resfinder-4.4.2.dist-info/WHEEL - Adding .pdm-build/resfinder-4.4.2.dist-info/entry_points.txt -> resfinder-4.4.2.dist-info/entry_points.txt - Adding .pdm-build/resfinder-4.4.2.dist-info/licenses/LICENSE -> resfinder-4.4.2.dist-info/licenses/LICENSE - Adding src/resfinder/__init__.py -> resfinder/__init__.py - Adding src/resfinder/__main__.py -> resfinder/__main__.py - Adding src/resfinder/amr_abbreviations.md -> resfinder/amr_abbreviations.md - Adding src/resfinder/cge/__init__.py -> resfinder/cge/__init__.py - Adding src/resfinder/cge/config.py -> resfinder/cge/config.py - Adding src/resfinder/cge/output/__init__.py -> resfinder/cge/output/__init__.py - Adding src/resfinder/cge/output/exceptions.py -> resfinder/cge/output/exceptions.py - Adding src/resfinder/cge/output/gene_result.py -> resfinder/cge/output/gene_result.py - Adding src/resfinder/cge/output/orderedset.py -> resfinder/cge/output/orderedset.py - Adding src/resfinder/cge/output/phenotype_result.py -> resfinder/cge/output/phenotype_result.py - Adding src/resfinder/cge/output/seq_variation_result.py -> resfinder/cge/output/seq_variation_result.py - Adding src/resfinder/cge/output/std_results.py -> resfinder/cge/output/std_results.py - Adding src/resfinder/cge/output/table.py -> resfinder/cge/output/table.py - Adding src/resfinder/cge/phenotype2genotype/__init__.py -> resfinder/cge/phenotype2genotype/__init__.py - Adding src/resfinder/cge/phenotype2genotype/abclassdef.py -> resfinder/cge/phenotype2genotype/abclassdef.py - Adding src/resfinder/cge/phenotype2genotype/dbhit.py -> resfinder/cge/phenotype2genotype/dbhit.py - Adding src/resfinder/cge/phenotype2genotype/feature.py -> resfinder/cge/phenotype2genotype/feature.py - Adding src/resfinder/cge/phenotype2genotype/isolate.py -> resfinder/cge/phenotype2genotype/isolate.py - Adding src/resfinder/cge/phenotype2genotype/phenodbpoint.py -> resfinder/cge/phenotype2genotype/phenodbpoint.py - Adding src/resfinder/cge/phenotype2genotype/phenotype.py -> resfinder/cge/phenotype2genotype/phenotype.py - Adding src/resfinder/cge/phenotype2genotype/res_profile.py -> resfinder/cge/phenotype2genotype/res_profile.py - Adding src/resfinder/cge/phenotype2genotype/res_sumtable.py -> resfinder/cge/phenotype2genotype/res_sumtable.py - Adding src/resfinder/cge/pointfinder.py -> resfinder/cge/pointfinder.py - Adding src/resfinder/cge/resfinder.py -> resfinder/cge/resfinder.py - Adding src/resfinder/cge/runinfo.py -> resfinder/cge/runinfo.py - Adding src/resfinder/environment_variables.md -> resfinder/environment_variables.md - Adding src/resfinder/run_resfinder.py -> resfinder/run_resfinder.py - Adding src/resfinder/species_abbreviations.md -> resfinder/species_abbreviations.md - Adding resfinder-4.4.2.dist-info/RECORD -> resfinder-4.4.2.dist-info/RECORD Successfully built resfinder-4.4.2-py3-none-any.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/resfinder-4.4.2/.pybuild/cpython3_3.13_resfinder/build; python3.13 -m unittest discover -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s NO TESTS RAN create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/resfinder-4.4.2' dh_install # do not install nextflow scripts find debian -name '*.nf' -type f | xargs rm -rf mkdir -p debian/resfinder/usr/lib/python3/dist-packages/resfinder mv debian/resfinder/usr/share/resfinder/__*.py debian/resfinder/usr/lib/python3/dist-packages/resfinder mv debian/resfinder/usr/share/resfinder/*.md debian/resfinder/usr/lib/python3/dist-packages/resfinder mv debian/resfinder/usr/share/resfinder/cge debian/resfinder/usr/lib/python3/dist-packages/resfinder make[1]: Leaving directory '/build/reproducible-path/resfinder-4.4.2' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/resfinder-4.4.2' dh_installman --language=C make[1]: Leaving directory '/build/reproducible-path/resfinder-4.4.2' 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 debian/rules override_dh_fixperms make[1]: Entering directory '/build/reproducible-path/resfinder-4.4.2' dh_fixperms find debian -name run_indexes.sh -type f | xargs chmod +x find debian -name run_resfinder.py -type f | xargs chmod +x make[1]: Leaving directory '/build/reproducible-path/resfinder-4.4.2' 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 'resfinder-example' in '../resfinder-example_4.4.2-2_all.deb'. dpkg-deb: building package 'resfinder' in '../resfinder_4.4.2-2_all.deb'. dpkg-genbuildinfo --build=binary -O../resfinder_4.4.2-2_amd64.buildinfo dpkg-genchanges --build=binary -O../resfinder_4.4.2-2_amd64.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/900687 and its subdirectories I: Current time: Tue Sep 9 19:40:24 -12 2025 I: pbuilder-time-stamp: 1757490024 Wed Sep 10 07:40:25 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos5-amd64.debian.net. Wed Sep 10 07:40:25 UTC 2025 I: Preparing to do remote build '2' on ionos5-amd64.debian.net. Wed Sep 10 07:44:35 UTC 2025 I: Deleting $TMPDIR on ionos5-amd64.debian.net. Wed Sep 10 07:44:36 UTC 2025 I: resfinder_4.4.2-2_amd64.changes: Format: 1.8 Date: Tue, 05 Nov 2024 01:10:00 +0100 Source: resfinder Binary: resfinder resfinder-example Architecture: all Version: 4.4.2-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Santiago Vila Description: resfinder - identify acquired antimicrobial resistance genes resfinder-example - identify acquired antimicrobial resistance genes (example data) Closes: 1078562 Changes: resfinder (4.4.2-2) unstable; urgency=medium . * Team upload. . [ Boyuan Yang ] * debian/patches/pyproject.toml-Migrate-to-pdm-backend.patch: Add patch from upstream new version to migrate from python3-pdm-pep517 to python3-pdm-backend. Closes: #1078562. . [ Michael R. Crusoe ] * d/tests/control: since skip-not-installable is specified, there is no reason to restrict the architectures anymore. Checksums-Sha1: 1473b9bd29d114a696cc0cd167c27ff8849152bb 574852 resfinder-example_4.4.2-2_all.deb de75c79fee07ce3f2857d18357ea85e5d4c019a8 67988 resfinder_4.4.2-2_all.deb 02e4b5bdb99dfffb0ae0c90aa272d7fba7d6b58b 7093 resfinder_4.4.2-2_amd64.buildinfo Checksums-Sha256: eaeb3c535d7e9c03da449599dfc5b2133b13923f3d1c1fb91738aedc76d96b04 574852 resfinder-example_4.4.2-2_all.deb 9bf9bb64dabca2f4aebf075744d44eab3210970fbf335ee1f221eb3fd54a838a 67988 resfinder_4.4.2-2_all.deb 2070388edd020c5bdb8f81ac78edbb554a8ccf4802f92cd68f019faf0c67188a 7093 resfinder_4.4.2-2_amd64.buildinfo Files: 117d4b6abaae20f5c46837eefb16ff8e 574852 science optional resfinder-example_4.4.2-2_all.deb 5ac3887582571c40fe761fe95b3494d0 67988 science optional resfinder_4.4.2-2_all.deb 1ecc216ef29c79fb41f41853a954f0fd 7093 science optional resfinder_4.4.2-2_amd64.buildinfo Wed Sep 10 07:44:36 UTC 2025 I: diffoscope 306 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_21-55647.service; invocation ID: 3149229ded124e3c96df9710a8d8e2c3 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ZBbso9QI/resfinder_4.4.2-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ZBbso9QI/resfinder_4.4.2-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ZBbso9QI/resfinder_4.4.2-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ZBbso9QI/b1/resfinder_4.4.2-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZBbso9QI/b2/resfinder_4.4.2-2_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 diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 221ms CPU time consumed: 188ms Memory peak: 17.5M (swap: 0B) Wed Sep 10 07:44:37 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Wed Sep 10 07:44:37 UTC 2025 I: resfinder from forky built successfully and reproducibly on amd64. Wed Sep 10 07:44:38 UTC 2025 I: Removing signed resfinder_4.4.2-2_amd64.buildinfo.asc files: removed './b1/resfinder_4.4.2-2_amd64.buildinfo.asc' removed './b2/resfinder_4.4.2-2_amd64.buildinfo.asc'