Running as unit: rb-build-amd64_25-53963.service; invocation ID: ce1defe77b8e41e1a6a98d42245234b2 ==================================================================================== Sun Sep 14 22:20:12 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_25) on jenkins, called using "ionos1-amd64 ionos5-amd64" as arguments. Sun Sep 14 22:20:12 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-pW8yq4RH" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Sep 14 22:20:12 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Sep 14 22:20:12 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-H1dtnu' Sun Sep 14 22:20:12 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Sep 14 22:20:12 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-4U8PHk' ok, let's check if srst2 is building anywhere yet… ok, srst2 is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of srst2 in forky on amd64 on jenkins now. 1st build will be done on ionos1-amd64.debian.net. 2nd build will be done on ionos5-amd64.debian.net. ============================================================================= Sun Sep 14 22:20:18 UTC 2025 I: starting to build srst2/forky/amd64 on jenkins on '2025-09-14 22:20' Sun Sep 14 22:20:18 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_25/53963/console.log 1757888418 amd64 forky srst2 Sun Sep 14 22:20:18 UTC 2025 I: Downloading source for forky/srst2=0.2.0-13 --2025-09-14 22:20:18-- http://deb.debian.org/debian/pool/main/s/srst2/srst2_0.2.0-13.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2269 (2.2K) [text/prs.lines.tag] Saving to: ‘srst2_0.2.0-13.dsc’ 0K .. 100% 125M=0s 2025-09-14 22:20:18 (125 MB/s) - ‘srst2_0.2.0-13.dsc’ saved [2269/2269] --2025-09-14 22:20:18-- http://deb.debian.org/debian/pool/main/s/srst2/srst2_0.2.0-13.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2269 (2.2K) [text/prs.lines.tag] Saving to: ‘srst2_0.2.0-13.dsc’ 0K .. 100% 125M=0s 2025-09-14 22:20:18 (125 MB/s) - ‘srst2_0.2.0-13.dsc’ saved [2269/2269] Sun Sep 14 22:20:18 UTC 2025 I: srst2_0.2.0-13.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: srst2 Binary: srst2 Architecture: any Version: 0.2.0-13 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://katholt.github.io/srst2/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/srst2 Vcs-Git: https://salsa.debian.org/med-team/srst2.git Testsuite: autopkgtest Testsuite-Triggers: python3-mock Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3, python3-setuptools, discount , dos2unix, python3-scipy , bowtie2 , samtools Package-List: srst2 deb science optional arch=any Checksums-Sha1: b10c53e3a16271e4506ce253200410884b02679a 1380071 srst2_0.2.0.orig.tar.gz 0214122734d772d823ed3c9873abf0475b02665e 18620 srst2_0.2.0-13.debian.tar.xz Checksums-Sha256: 352c59bdf00039dfa5610a4b88049a0eb114d7c2a305d4924b6e605cc6d15123 1380071 srst2_0.2.0.orig.tar.gz 3ded0806794198fc0bc27628677eb5cab6640c1ab2f46c2b3ee8a78934f28a32 18620 srst2_0.2.0-13.debian.tar.xz Files: ef447fc394d2f60adc2a32edd6ebe374 1380071 srst2_0.2.0.orig.tar.gz 0d13aaa2dca9371e907ca792ee800ef9 18620 srst2_0.2.0-13.debian.tar.xz Dgit: f1820320070fdd839c148a0561f39b9455671ce0 debian archive/debian/0.2.0-13 https://git.dgit.debian.org/srst2 -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmdSIJcUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdruOQ//WBlAVcfc0kis9t/jbxqqick6Eoad jEnMKXzNJlylZGYrJDGSVFp7PK1tRYytlzvybKrqr/yYOZ2Fcp7CjtGxbuVyMtPf DZLTVFpFFBETs2d9NWCpBEHZkoMcOqx3q51+dtYBJhcm5ibb9KKcvCG0Yz4ZXL69 inUfCX5Bss+bIV3n1xqayedCwrmjv3acdXrIwYxORtWjh3IzK+IRdLxlE2TuJLOK HWQx3jrKfmbBZ13VhvIhRW1mumoRezsEnashXlo4ajvI1CEadZqEgdArTLcP+ERq /tAQELY4zBkyk8p6pOxCch5TS9cc/TQTD3sfwEhSs+PKutAj4hU8FVpEgGcpnWiQ NYnzAOMGH0rTrRaVmBu9wQWsM51raSsBo6HwikQMJn21z42xhMFsLBxuO6cHM9GC kE3IWOz8L/x5Y4nhoBV8Bw+ItzRL19hmmb/v13yMwyRsHVl5cYeBPJJlBFHbq14o Kb5WO84Ipr8tAE5Wc92FxtkqBGL+BeQyjYR3sF8ngj+aMVdy/sgqXXVVRlLtnxXI KXqMzMKw1cfdrLvcIXpzOuJJ31S+BOGpm1os0QO/RtrSWtpr67YT42Takc7oepWX G/Bq2BACqJew3SP9ybd/mxXom6qO1h/sn+UDoMPYAXvmTOOEyk4+fDbsue/Ep8k3 E8SZND98TRU7fmM= =nOzf -----END PGP SIGNATURE----- Sun Sep 14 22:20:18 UTC 2025 I: Checking whether the package is not for us Sun Sep 14 22:20:18 UTC 2025 I: Starting 1st build on remote node ionos1-amd64.debian.net. Sun Sep 14 22:20:18 UTC 2025 I: Preparing to do remote build '1' on ionos1-amd64.debian.net. Sun Sep 14 22:20:18 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Sep 14 22:20:18 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-GuOK3w' ==================================================================================== Sun Sep 14 22:20:19 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "1 srst2 forky /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu 0.2.0-13" as arguments. Sun Sep 14 22:20:19 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-AyTc3CqP" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Sep 14 22:20:19 UTC 2025 I: Downloading source for forky/srst2=0.2.0-13 Reading package lists... NOTICE: 'srst2' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/srst2.git Please use: git clone https://salsa.debian.org/med-team/srst2.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1401 kB of source archives. Get:1 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (dsc) [2269 B] Get:2 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (tar) [1380 kB] Get:3 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (diff) [18.6 kB] Fetched 1401 kB in 0s (75.0 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'srst2' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/srst2.git Please use: git clone https://salsa.debian.org/med-team/srst2.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1401 kB of source archives. Get:1 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (dsc) [2269 B] Get:2 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (tar) [1380 kB] Get:3 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (diff) [18.6 kB] Fetched 1401 kB in 0s (75.0 MB/s) Download complete and in download only mode ============================================================================= Building srst2 in forky on amd64 on ionos1-amd64 now. Date: Sun Sep 14 22:20:19 UTC 2025 Date UTC: Sun Sep 14 22:20:19 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Sun Sep 14 10:20:19 -12 2025 I: pbuilder-time-stamp: 1757888419 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 [srst2_0.2.0-13.dsc] I: copying [./srst2_0.2.0.orig.tar.gz] I: copying [./srst2_0.2.0-13.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./srst2_0.2.0-13.dsc: no acceptable signature found dpkg-source: info: extracting srst2 in srst2-0.2.0 dpkg-source: info: unpacking srst2_0.2.0.orig.tar.gz dpkg-source: info: unpacking srst2_0.2.0-13.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying check_command_line_arguments.patch dpkg-source: info: applying add_usr_bin_python_to_scripts.patch dpkg-source: info: applying fix_test.patch dpkg-source: info: applying fix_grep_call.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying biopython-1.78.patch dpkg-source: info: applying syntax-warning.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3753085/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='bdff2c14691941c4b861c608273e66e4' 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='3753085' 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.S7lPaVXu/pbuilderrc_a4Mb --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.S7lPaVXu/b1 --logfile b1/build.log srst2_0.2.0-13.dsc' SUDO_GID='110' SUDO_HOME='/var/lib/jenkins' SUDO_UID='105' 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 ionos1-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/3753085/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, python3, python3-setuptools, discount, dos2unix, python3-scipy, bowtie2, samtools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19917 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 python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on discount; however: Package discount is not installed. pbuilder-satisfydepends-dummy depends on dos2unix; however: Package dos2unix is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools 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} bowtie2{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} discount{a} dos2unix{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libmarkdown2{a} libncurses6{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} python3{a} python3-autocommand{a} python3-decorator{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-pkg-resources{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} samtools{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix python3-pil python3-pooch python3-yaml wget 0 packages upgraded, 93 newly installed, 0 to remove and 0 not upgraded. Need to get 53.3 MB of archives. After unpacking 220 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 3.5.2-2 [25.5 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 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-1.2 [142 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 15.2.0-3 [894 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-1.2 [5224 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 bowtie2 amd64 2.5.4-1+b2 [1505 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-5 [540 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 42 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libmarkdown2 amd64 2.2.7-2.1 [36.0 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 discount amd64 2.2.7-2.1 [24.6 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 dos2unix amd64 7.5.2-1 [518 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.9-3 [1465 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 63 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 69 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 libcurl3t64-gnutls amd64 8.15.0-1 [385 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 libhtscodecs2 amd64 1.6.1-2 [95.8 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 libhts3t64 amd64 1.22.1+ds2-1 [499 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 libncurses6 amd64 6.5+20250216-2 [105 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 92 http://deb.debian.org/debian forky/main amd64 python3-scipy amd64 1.15.3-1.1 [17.0 MB] Get: 93 http://deb.debian.org/debian forky/main amd64 samtools amd64 1.22.1-1 [697 kB] Fetched 53.3 MB in 5s (10.9 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (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 ... 19917 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.7-1) ... 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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 (8.3-3) ... 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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Unpacking discount (2.2.7-2.1) ... Selecting previously unselected package dos2unix. Preparing to unpack .../39-dos2unix_7.5.2-1_amd64.deb ... Unpacking dos2unix (7.5.2-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../40-libbrotli1_1.1.0-2+b7_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b7) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../41-libcom-err2_1.47.2-3+b3_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-3+b3) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../42-libidn2-0_2.3.8-4_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-4) ... Selecting previously unselected package libp11-kit0:amd64. Preparing to unpack .../43-libp11-kit0_0.25.5-3_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6:amd64. Preparing to unpack .../44-libtasn1-6_4.20.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:amd64. Preparing to unpack .../45-libgnutls30t64_3.8.9-3_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.9-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../46-libkrb5support0_1.21.3-5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-5) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../47-libk5crypto3_1.21.3-5_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../48-libkeyutils1_1.6.3-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../49-libkrb5-3_1.21.3-5_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-5) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../50-libgssapi-krb5-2_1.21.3-5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../51-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../52-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../53-libldap2_2.6.10+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../54-libnghttp2-14_1.64.0-1.1+b1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../55-libnghttp3-9_1.8.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.8.0-1) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../56-libngtcp2-16_1.11.0-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.11.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../57-libngtcp2-crypto-gnutls8_1.11.0-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../58-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../59-librtmp1_2.4+20151223.gitfa8646d.1-3_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../60-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../61-libcurl3t64-gnutls_8.15.0-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.15.0-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../62-libdeflate0_1.23-2_amd64.deb ... Unpacking libdeflate0:amd64 (1.23-2) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../63-libhtscodecs2_1.6.1-2_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-2) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../64-libhts3t64_1.22.1+ds2-1_amd64.deb ... Unpacking libhts3t64:amd64 (1.22.1+ds2-1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../65-libncurses6_6.5+20250216-2_amd64.deb ... Unpacking libncurses6:amd64 (6.5+20250216-2) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../66-python3-autocommand_2.2.2-3_all.deb ... Unpacking python3-autocommand (2.2.2-3) ... Selecting previously unselected package python3-decorator. Preparing to unpack .../67-python3-decorator_5.2.1-2_all.deb ... Unpacking python3-decorator (5.2.1-2) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../68-python3-more-itertools_10.8.0-1_all.deb ... Unpacking python3-more-itertools (10.8.0-1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../69-python3-typing-extensions_4.15.0-1_all.deb ... Unpacking python3-typing-extensions (4.15.0-1) ... Selecting previously unselected package python3-typeguard. Preparing to unpack .../70-python3-typeguard_4.4.4-1_all.deb ... Unpacking python3-typeguard (4.4.4-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../71-python3-inflect_7.5.0-1_all.deb ... Unpacking python3-inflect (7.5.0-1) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../72-python3-jaraco.functools_4.1.0-1_all.deb ... Unpacking python3-jaraco.functools (4.1.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../73-python3-pkg-resources_78.1.1-0.1_all.deb ... Unpacking python3-pkg-resources (78.1.1-0.1) ... Selecting previously unselected package python3-jaraco.text. Preparing to unpack .../74-python3-jaraco.text_4.0.0-1_all.deb ... Unpacking python3-jaraco.text (4.0.0-1) ... Selecting previously unselected package python3-zipp. Preparing to unpack .../75-python3-zipp_3.23.0-1_all.deb ... Unpacking python3-zipp (3.23.0-1) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../76-python3-setuptools_78.1.1-0.1_all.deb ... Unpacking python3-setuptools (78.1.1-0.1) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../77-python3-jaraco.context_6.0.1-1_all.deb ... Unpacking python3-jaraco.context (6.0.1-1) ... Selecting previously unselected package python3-scipy. Preparing to unpack .../78-python3-scipy_1.15.3-1.1_amd64.deb ... Unpacking python3-scipy (1.15.3-1.1) ... Selecting previously unselected package samtools. Preparing to unpack .../79-samtools_1.22.1-1_amd64.deb ... Unpacking samtools (1.22.1-1) ... Setting up libhtscodecs2:amd64 (1.6.1-2) ... Setting up media-types (13.0.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libkeyutils1:amd64 (1.6.3-6) ... Setting up bsdextrautils (2.41.1-2) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.14.5+dfsg-0.2) ... Setting up libdebhelper-perl (13.26) ... Setting up libbrotli1:amd64 (1.1.0-2+b7) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Setting up libdeflate0:amd64 (1.23-2) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-1) ... Setting up libcom-err2:amd64 (1.47.2-3+b3) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:amd64 (0.193-3) ... Setting up libkrb5support0:amd64 (1.21.3-5) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Sep 14 22:21:48 UTC 2025. Universal Time is now: Sun Sep 14 22:21:48 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. 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 libncurses6:amd64 (6.5+20250216-2) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1.2) ... 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 (15.2.0-3) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:amd64 (1.8.0-1) ... Setting up libffi8:amd64 (3.5.2-2) ... 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 netbase (6.5) ... Setting up libngtcp2-16:amd64 (1.11.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up dos2unix (7.5.2-1) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up readline-common (8.3-3) ... Setting up libmarkdown2:amd64 (2.2.7-2.1) ... 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 (1.15.0-1) ... 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 discount (2.2.7-2.1) ... 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 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... 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-zipp (3.23.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up bowtie2 (2.5.4-1+b2) ... Setting up python3-decorator (5.2.1-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up python3-typing-extensions (4.15.0-1) ... Setting up python3-numpy (1:2.2.4+ds-1.2) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-scipy (1.15.3-1.1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-typeguard (4.4.4-1) ... Setting up libcurl3t64-gnutls:amd64 (8.15.0-1) ... Setting up debhelper (13.26) ... Setting up python3-inflect (7.5.0-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libhts3t64:amd64 (1.22.1+ds2-1) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up samtools (1.22.1-1) ... 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/srst2-0.2.0/ && 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 > ../srst2_0.2.0-13_source.changes dpkg-buildpackage: info: source package srst2 dpkg-buildpackage: info: source version 0.2.0-13 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it 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 I: pybuild base:311: python3.13 setup.py config debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_auto_build I: pybuild base:311: /usr/bin/python3 setup.py build markdown README.md > README.html markdown database_clustering/README.md > database_clustering_README.html make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' cd tests && python3 test_slurm_srst2.py && python3 test_srst2.py ........... ---------------------------------------------------------------------- Ran 11 tests in 0.079s OK ................. ---------------------------------------------------------------------- Ran 17 tests in 0.048s OK make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/srst2/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/srst2-0.2.0/debian/srst2 /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: 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() debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_install mv debian/srst2/usr/lib/*/dist-packages/srst2/* debian/srst2/usr/share/srst2 rm -rf debian/*/usr/bin/*.py debian/srst2/usr/lib/*/dist-packages/ # fix line endings to make sure Python3 interpreter will be found find debian/*/usr/share -name "VFDB*" -exec dos2unix \{\} \; dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDB_cdhit_to_csv.py to Unix format... dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDBgenus.py to Unix format... sed -i '1s:^#!/usr/local.*python[.0-9]*$:#!/usr/bin/python3:' debian/srst2/usr/share/srst2/qsub_srst2.py find debian -name __pycache__ -type d | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' debian/rules override_dh_installdocs make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_installdocs sed -i "s?sys.path.append(os.path.abspath(os.path.join(os.path.dirname(__file__).*scripts.*?sys.path.append(os.path.abspath('/usr/share/srst2'))?" debian/srst2/usr/share/doc/srst2/tests/*.py make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/srst2/usr/bin/srst2 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/srst2-0.2.0' dh_fixperms chmod +x debian/srst2/usr/share/srst2/database_clustering/get_genus_vfdb.sh chmod +x debian/srst2/usr/share/srst2/database_clustering/get_all_vfdb.sh chmod -x debian/srst2/usr/share/srst2/database_clustering/align_plot_tree_min3.py for py in `find debian -name "*.py"` ; do \ if head -n 1 $py | grep -q '^#! */usr/bin/.*python' ; then chmod +x $py ; fi ; \ done make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -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 'srst2' in '../srst2_0.2.0-13_amd64.deb'. dpkg-genbuildinfo --build=binary -O../srst2_0.2.0-13_amd64.buildinfo dpkg-genchanges --build=binary -O../srst2_0.2.0-13_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/3753085 and its subdirectories I: Current time: Sun Sep 14 10:23:01 -12 2025 I: pbuilder-time-stamp: 1757888581 Sun Sep 14 22:23:01 UTC 2025 I: Signing ./b1/srst2_0.2.0-13_amd64.buildinfo as srst2_0.2.0-13_amd64.buildinfo.asc Sun Sep 14 22:23:01 UTC 2025 I: Signed ./b1/srst2_0.2.0-13_amd64.buildinfo as ./b1/srst2_0.2.0-13_amd64.buildinfo.asc Sun Sep 14 22:23:01 UTC 2025 - build #1 for srst2/forky/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Sun Sep 14 22:23:01 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-AyTc3CqP, removing. /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu: total 16 drwxrwxr-x 2 jenkins jenkins 4096 Sep 14 22:23 b1 drwxrwxr-x 2 jenkins jenkins 4096 Sep 14 22:20 b2 -rw------- 1 jenkins jenkins 3354 Sep 14 22:20 rbuildlog.WtPEAXK -rw-rw-r-- 1 jenkins jenkins 2269 Dec 5 2024 srst2_0.2.0-13.dsc /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b1: total 156 -rw-r--r-- 1 jenkins jenkins 45698 Sep 14 22:23 build.log -rw-r--r-- 1 jenkins jenkins 18620 Sep 14 22:23 srst2_0.2.0-13.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2269 Sep 14 22:23 srst2_0.2.0-13.dsc -rw-r--r-- 1 jenkins jenkins 6587 Sep 14 22:23 srst2_0.2.0-13_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 7469 Sep 14 22:23 srst2_0.2.0-13_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1128 Sep 14 22:23 srst2_0.2.0-13_amd64.changes -rw-r--r-- 1 jenkins jenkins 61288 Sep 14 22:23 srst2_0.2.0-13_amd64.deb -rw-r--r-- 1 jenkins jenkins 1280 Sep 14 22:23 srst2_0.2.0-13_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b2: total 0 Sun Sep 14 22:23:03 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Sep 14 10:20:19 -12 2025 I: pbuilder-time-stamp: 1757888419 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 [srst2_0.2.0-13.dsc] I: copying [./srst2_0.2.0.orig.tar.gz] I: copying [./srst2_0.2.0-13.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./srst2_0.2.0-13.dsc: no acceptable signature found dpkg-source: info: extracting srst2 in srst2-0.2.0 dpkg-source: info: unpacking srst2_0.2.0.orig.tar.gz dpkg-source: info: unpacking srst2_0.2.0-13.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying check_command_line_arguments.patch dpkg-source: info: applying add_usr_bin_python_to_scripts.patch dpkg-source: info: applying fix_test.patch dpkg-source: info: applying fix_grep_call.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying biopython-1.78.patch dpkg-source: info: applying syntax-warning.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3753085/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='bdff2c14691941c4b861c608273e66e4' 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='3753085' 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.S7lPaVXu/pbuilderrc_a4Mb --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.S7lPaVXu/b1 --logfile b1/build.log srst2_0.2.0-13.dsc' SUDO_GID='110' SUDO_HOME='/var/lib/jenkins' SUDO_UID='105' 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 ionos1-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/3753085/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, python3, python3-setuptools, discount, dos2unix, python3-scipy, bowtie2, samtools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19917 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 python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on discount; however: Package discount is not installed. pbuilder-satisfydepends-dummy depends on dos2unix; however: Package dos2unix is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools 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} bowtie2{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} discount{a} dos2unix{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libmarkdown2{a} libncurses6{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} python3{a} python3-autocommand{a} python3-decorator{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-pkg-resources{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} samtools{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix python3-pil python3-pooch python3-yaml wget 0 packages upgraded, 93 newly installed, 0 to remove and 0 not upgraded. Need to get 53.3 MB of archives. After unpacking 220 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 3.5.2-2 [25.5 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 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-1.2 [142 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 15.2.0-3 [894 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-1.2 [5224 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 bowtie2 amd64 2.5.4-1+b2 [1505 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-5 [540 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 42 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libmarkdown2 amd64 2.2.7-2.1 [36.0 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 discount amd64 2.2.7-2.1 [24.6 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 dos2unix amd64 7.5.2-1 [518 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.9-3 [1465 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 63 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 69 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 libcurl3t64-gnutls amd64 8.15.0-1 [385 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 libhtscodecs2 amd64 1.6.1-2 [95.8 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 libhts3t64 amd64 1.22.1+ds2-1 [499 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 libncurses6 amd64 6.5+20250216-2 [105 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 92 http://deb.debian.org/debian forky/main amd64 python3-scipy amd64 1.15.3-1.1 [17.0 MB] Get: 93 http://deb.debian.org/debian forky/main amd64 samtools amd64 1.22.1-1 [697 kB] Fetched 53.3 MB in 5s (10.9 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (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 ... 19917 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.7-1_amd64.deb ... Unpacking python3.13-minimal (3.13.7-1) ... Setting up libpython3.13-minimal:amd64 (3.13.7-1) ... Setting up libexpat1:amd64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.7-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20251 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.5-1_amd64.deb ... Unpacking python3-minimal (3.13.5-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../4-libffi8_3.5.2-2_amd64.deb ... Unpacking libffi8:amd64 (3.5.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../6-libreadline8t64_8.3-3_amd64.deb ... 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 (8.3-3) ... 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. Preparing to unpack .../9-libpython3-stdlib_3.13.5-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.5-1) ... Setting up python3-minimal (3.13.5-1) ... Selecting previously unselected package python3. (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 ... 21266 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.5-1_amd64.deb ... Unpacking python3 (3.13.5-1) ... Selecting previously unselected package python3-numpy-dev:amd64. Preparing to unpack .../01-python3-numpy-dev_1%3a2.2.4+ds-1.2_amd64.deb ... Unpacking python3-numpy-dev:amd64 (1:2.2.4+ds-1.2) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../02-libblas3_3.12.1-7_amd64.deb ... Unpacking libblas3:amd64 (3.12.1-7) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../03-libgfortran5_15.2.0-3_amd64.deb ... Unpacking libgfortran5:amd64 (15.2.0-3) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../04-liblapack3_3.12.1-7_amd64.deb ... Unpacking liblapack3:amd64 (3.12.1-7) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../05-python3-numpy_1%3a2.2.4+ds-1.2_amd64.deb ... Unpacking python3-numpy (1:2.2.4+ds-1.2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../07-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../08-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../09-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../10-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../11-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../12-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../13-bsdextrautils_2.41.1-2_amd64.deb ... Unpacking bsdextrautils (2.41.1-2) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../14-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../15-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../16-m4_1.4.20-1_amd64.deb ... Unpacking m4 (1.4.20-1) ... Selecting previously unselected package autoconf. Preparing to unpack .../17-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../18-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../19-automake_1%3a1.17-4_all.deb ... Unpacking automake (1:1.17-4) ... Selecting previously unselected package autopoint. 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Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Sep 14 22:21:48 UTC 2025. Universal Time is now: Sun Sep 14 22:21:48 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. 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 libncurses6:amd64 (6.5+20250216-2) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1.2) ... 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 (15.2.0-3) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:amd64 (1.8.0-1) ... Setting up libffi8:amd64 (3.5.2-2) ... 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 netbase (6.5) ... Setting up libngtcp2-16:amd64 (1.11.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up dos2unix (7.5.2-1) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up readline-common (8.3-3) ... Setting up libmarkdown2:amd64 (2.2.7-2.1) ... 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 (1.15.0-1) ... 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 discount (2.2.7-2.1) ... 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 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... 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-zipp (3.23.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up bowtie2 (2.5.4-1+b2) ... Setting up python3-decorator (5.2.1-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up python3-typing-extensions (4.15.0-1) ... Setting up python3-numpy (1:2.2.4+ds-1.2) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-scipy (1.15.3-1.1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-typeguard (4.4.4-1) ... Setting up libcurl3t64-gnutls:amd64 (8.15.0-1) ... Setting up debhelper (13.26) ... Setting up python3-inflect (7.5.0-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libhts3t64:amd64 (1.22.1+ds2-1) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up samtools (1.22.1-1) ... 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/srst2-0.2.0/ && 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 > ../srst2_0.2.0-13_source.changes dpkg-buildpackage: info: source package srst2 dpkg-buildpackage: info: source version 0.2.0-13 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it 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 I: pybuild base:311: python3.13 setup.py config debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_auto_build I: pybuild base:311: /usr/bin/python3 setup.py build markdown README.md > README.html markdown database_clustering/README.md > database_clustering_README.html make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' cd tests && python3 test_slurm_srst2.py && python3 test_srst2.py ........... ---------------------------------------------------------------------- Ran 11 tests in 0.079s OK ................. ---------------------------------------------------------------------- Ran 17 tests in 0.048s OK make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/srst2/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/srst2-0.2.0/debian/srst2 /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: 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() debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_install mv debian/srst2/usr/lib/*/dist-packages/srst2/* debian/srst2/usr/share/srst2 rm -rf debian/*/usr/bin/*.py debian/srst2/usr/lib/*/dist-packages/ # fix line endings to make sure Python3 interpreter will be found find debian/*/usr/share -name "VFDB*" -exec dos2unix \{\} \; dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDB_cdhit_to_csv.py to Unix format... dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDBgenus.py to Unix format... sed -i '1s:^#!/usr/local.*python[.0-9]*$:#!/usr/bin/python3:' debian/srst2/usr/share/srst2/qsub_srst2.py find debian -name __pycache__ -type d | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' debian/rules override_dh_installdocs make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_installdocs sed -i "s?sys.path.append(os.path.abspath(os.path.join(os.path.dirname(__file__).*scripts.*?sys.path.append(os.path.abspath('/usr/share/srst2'))?" debian/srst2/usr/share/doc/srst2/tests/*.py make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/srst2/usr/bin/srst2 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/srst2-0.2.0' dh_fixperms chmod +x debian/srst2/usr/share/srst2/database_clustering/get_genus_vfdb.sh chmod +x debian/srst2/usr/share/srst2/database_clustering/get_all_vfdb.sh chmod -x debian/srst2/usr/share/srst2/database_clustering/align_plot_tree_min3.py for py in `find debian -name "*.py"` ; do \ if head -n 1 $py | grep -q '^#! */usr/bin/.*python' ; then chmod +x $py ; fi ; \ done make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -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 'srst2' in '../srst2_0.2.0-13_amd64.deb'. dpkg-genbuildinfo --build=binary -O../srst2_0.2.0-13_amd64.buildinfo dpkg-genchanges --build=binary -O../srst2_0.2.0-13_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/3753085 and its subdirectories I: Current time: Sun Sep 14 10:23:01 -12 2025 I: pbuilder-time-stamp: 1757888581 Sun Sep 14 22:23:03 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos5-amd64.debian.net. Sun Sep 14 22:23:03 UTC 2025 I: Preparing to do remote build '2' on ionos5-amd64.debian.net. Sun Sep 14 22:23:03 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Sep 14 22:23:03 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-GsZTIN' ==================================================================================== Sun Oct 18 04:46:03 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "2 srst2 forky /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu 0.2.0-13" as arguments. Sun Oct 18 04:46:03 UTC 2026 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-7E6EQQYc" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Oct 18 04:46:03 UTC 2026 I: Downloading source for forky/srst2=0.2.0-13 Reading package lists... NOTICE: 'srst2' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/srst2.git Please use: git clone https://salsa.debian.org/med-team/srst2.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1401 kB of source archives. Get:1 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (dsc) [2269 B] Get:2 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (tar) [1380 kB] Get:3 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (diff) [18.6 kB] Fetched 1401 kB in 0s (53.4 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'srst2' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/srst2.git Please use: git clone https://salsa.debian.org/med-team/srst2.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1401 kB of source archives. Get:1 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (dsc) [2269 B] Get:2 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (tar) [1380 kB] Get:3 http://deb.debian.org/debian forky/main srst2 0.2.0-13 (diff) [18.6 kB] Fetched 1401 kB in 0s (53.4 MB/s) Download complete and in download only mode ============================================================================= Re-Building srst2 in forky on amd64 on ionos5-amd64 now. Date: Sun Oct 18 04:46:03 UTC 2026 Date UTC: Sun Oct 18 04:46:03 UTC 2026 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/pbuilderrc_MDNX + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' srst2 = debian-installer -o srst2 = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' srst2 = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/pbuilderrc_MDNX --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b2 --logfile b2/build.log srst2_0.2.0-13.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Sun Oct 18 18:46:04 +14 2026 I: pbuilder-time-stamp: 1792298764 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 [srst2_0.2.0-13.dsc] I: copying [./srst2_0.2.0.orig.tar.gz] I: copying [./srst2_0.2.0-13.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./srst2_0.2.0-13.dsc: no acceptable signature found dpkg-source: info: extracting srst2 in srst2-0.2.0 dpkg-source: info: unpacking srst2_0.2.0.orig.tar.gz dpkg-source: info: unpacking srst2_0.2.0-13.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying check_command_line_arguments.patch dpkg-source: info: applying add_usr_bin_python_to_scripts.patch dpkg-source: info: applying fix_test.patch dpkg-source: info: applying fix_grep_call.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying biopython-1.78.patch dpkg-source: info: applying syntax-warning.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/D01_modify_environment starting debug: Running on ionos5-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Oct 18 04:46 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.3.3(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DIRSTACK=() DISTRIBUTION=forky EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=6bd8def1eef04cbb93f596ce99dc05cf LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=4133556 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/pbuilderrc_MDNX --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b2 --logfile b2/build.log srst2_0.2.0-13.dsc' SUDO_GID=110 SUDO_HOME=/var/lib/jenkins SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 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 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4133556/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, python3, python3-setuptools, discount, dos2unix, python3-scipy, bowtie2, samtools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19917 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 python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on discount; however: Package discount is not installed. pbuilder-satisfydepends-dummy depends on dos2unix; however: Package dos2unix is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools 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} bowtie2{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} discount{a} dos2unix{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libmarkdown2{a} libncurses6{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} python3{a} python3-autocommand{a} python3-decorator{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-pkg-resources{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} samtools{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix python3-pil python3-pooch python3-yaml wget 0 packages upgraded, 93 newly installed, 0 to remove and 0 not upgraded. Need to get 53.3 MB of archives. After unpacking 220 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 3.5.2-2 [25.5 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 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-1.2 [142 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 15.2.0-3 [894 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-1.2 [5224 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 bowtie2 amd64 2.5.4-1+b2 [1505 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-5 [540 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 42 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libmarkdown2 amd64 2.2.7-2.1 [36.0 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 discount amd64 2.2.7-2.1 [24.6 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 dos2unix amd64 7.5.2-1 [518 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.9-3 [1465 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 63 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 69 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 libcurl3t64-gnutls amd64 8.15.0-1 [385 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 libhtscodecs2 amd64 1.6.1-2 [95.8 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 libhts3t64 amd64 1.22.1+ds2-1 [499 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 libncurses6 amd64 6.5+20250216-2 [105 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 92 http://deb.debian.org/debian forky/main amd64 python3-scipy amd64 1.15.3-1.1 [17.0 MB] Get: 93 http://deb.debian.org/debian forky/main amd64 samtools amd64 1.22.1-1 [697 kB] Fetched 53.3 MB in 1s (104 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (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 ... 19917 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.7-1) ... 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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 (8.3-3) ... 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. Preparing to unpack .../9-libpython3-stdlib_3.13.5-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.5-1) ... Setting up python3-minimal (3.13.5-1) ... Selecting previously unselected package python3. (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 ... 21266 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.5-1_amd64.deb ... Unpacking python3 (3.13.5-1) ... Selecting previously unselected package python3-numpy-dev:amd64. 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Unpacking discount (2.2.7-2.1) ... Selecting previously unselected package dos2unix. Preparing to unpack .../39-dos2unix_7.5.2-1_amd64.deb ... Unpacking dos2unix (7.5.2-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../40-libbrotli1_1.1.0-2+b7_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b7) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../41-libcom-err2_1.47.2-3+b3_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-3+b3) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../42-libidn2-0_2.3.8-4_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-4) ... Selecting previously unselected package libp11-kit0:amd64. Preparing to unpack .../43-libp11-kit0_0.25.5-3_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6:amd64. Preparing to unpack .../44-libtasn1-6_4.20.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:amd64. Preparing to unpack .../45-libgnutls30t64_3.8.9-3_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.9-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../46-libkrb5support0_1.21.3-5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-5) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../47-libk5crypto3_1.21.3-5_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../48-libkeyutils1_1.6.3-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../49-libkrb5-3_1.21.3-5_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-5) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../50-libgssapi-krb5-2_1.21.3-5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../51-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../52-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../53-libldap2_2.6.10+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../54-libnghttp2-14_1.64.0-1.1+b1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../55-libnghttp3-9_1.8.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.8.0-1) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../56-libngtcp2-16_1.11.0-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.11.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../57-libngtcp2-crypto-gnutls8_1.11.0-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../58-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../59-librtmp1_2.4+20151223.gitfa8646d.1-3_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../60-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../61-libcurl3t64-gnutls_8.15.0-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.15.0-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../62-libdeflate0_1.23-2_amd64.deb ... Unpacking libdeflate0:amd64 (1.23-2) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../63-libhtscodecs2_1.6.1-2_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-2) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../64-libhts3t64_1.22.1+ds2-1_amd64.deb ... Unpacking libhts3t64:amd64 (1.22.1+ds2-1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../65-libncurses6_6.5+20250216-2_amd64.deb ... Unpacking libncurses6:amd64 (6.5+20250216-2) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../66-python3-autocommand_2.2.2-3_all.deb ... Unpacking python3-autocommand (2.2.2-3) ... Selecting previously unselected package python3-decorator. Preparing to unpack .../67-python3-decorator_5.2.1-2_all.deb ... Unpacking python3-decorator (5.2.1-2) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../68-python3-more-itertools_10.8.0-1_all.deb ... Unpacking python3-more-itertools (10.8.0-1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../69-python3-typing-extensions_4.15.0-1_all.deb ... Unpacking python3-typing-extensions (4.15.0-1) ... Selecting previously unselected package python3-typeguard. Preparing to unpack .../70-python3-typeguard_4.4.4-1_all.deb ... Unpacking python3-typeguard (4.4.4-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../71-python3-inflect_7.5.0-1_all.deb ... Unpacking python3-inflect (7.5.0-1) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../72-python3-jaraco.functools_4.1.0-1_all.deb ... Unpacking python3-jaraco.functools (4.1.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../73-python3-pkg-resources_78.1.1-0.1_all.deb ... Unpacking python3-pkg-resources (78.1.1-0.1) ... Selecting previously unselected package python3-jaraco.text. Preparing to unpack .../74-python3-jaraco.text_4.0.0-1_all.deb ... Unpacking python3-jaraco.text (4.0.0-1) ... Selecting previously unselected package python3-zipp. Preparing to unpack .../75-python3-zipp_3.23.0-1_all.deb ... Unpacking python3-zipp (3.23.0-1) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../76-python3-setuptools_78.1.1-0.1_all.deb ... Unpacking python3-setuptools (78.1.1-0.1) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../77-python3-jaraco.context_6.0.1-1_all.deb ... Unpacking python3-jaraco.context (6.0.1-1) ... Selecting previously unselected package python3-scipy. Preparing to unpack .../78-python3-scipy_1.15.3-1.1_amd64.deb ... Unpacking python3-scipy (1.15.3-1.1) ... Selecting previously unselected package samtools. Preparing to unpack .../79-samtools_1.22.1-1_amd64.deb ... Unpacking samtools (1.22.1-1) ... Setting up libhtscodecs2:amd64 (1.6.1-2) ... Setting up media-types (13.0.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libkeyutils1:amd64 (1.6.3-6) ... Setting up bsdextrautils (2.41.1-2) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.14.5+dfsg-0.2) ... Setting up libdebhelper-perl (13.26) ... Setting up libbrotli1:amd64 (1.1.0-2+b7) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Setting up libdeflate0:amd64 (1.23-2) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-1) ... Setting up libcom-err2:amd64 (1.47.2-3+b3) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:amd64 (0.193-3) ... Setting up libkrb5support0:amd64 (1.21.3-5) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Oct 18 04:47:38 UTC 2026. Universal Time is now: Sun Oct 18 04:47:38 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. 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 libncurses6:amd64 (6.5+20250216-2) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1.2) ... 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 (15.2.0-3) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:amd64 (1.8.0-1) ... Setting up libffi8:amd64 (3.5.2-2) ... 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 netbase (6.5) ... Setting up libngtcp2-16:amd64 (1.11.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up dos2unix (7.5.2-1) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up readline-common (8.3-3) ... Setting up libmarkdown2:amd64 (2.2.7-2.1) ... 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 (1.15.0-1) ... 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 discount (2.2.7-2.1) ... 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 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... 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-zipp (3.23.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up bowtie2 (2.5.4-1+b2) ... Setting up python3-decorator (5.2.1-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up python3-typing-extensions (4.15.0-1) ... Setting up python3-numpy (1:2.2.4+ds-1.2) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-scipy (1.15.3-1.1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-typeguard (4.4.4-1) ... Setting up libcurl3t64-gnutls:amd64 (8.15.0-1) ... Setting up debhelper (13.26) ... Setting up python3-inflect (7.5.0-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libhts3t64:amd64 (1.22.1+ds2-1) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up samtools (1.22.1-1) ... 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: user script /srv/workspace/pbuilder/4133556/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for forky I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/srst2-0.2.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../srst2_0.2.0-13_source.changes dpkg-buildpackage: info: source package srst2 dpkg-buildpackage: info: source version 0.2.0-13 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it 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 I: pybuild base:311: python3.13 setup.py config debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_auto_build I: pybuild base:311: /usr/bin/python3 setup.py build markdown README.md > README.html markdown database_clustering/README.md > database_clustering_README.html make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' cd tests && python3 test_slurm_srst2.py && python3 test_srst2.py ........... ---------------------------------------------------------------------- Ran 11 tests in 0.023s OK ................. ---------------------------------------------------------------------- Ran 17 tests in 0.026s OK make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/srst2/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/srst2-0.2.0/debian/srst2 /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: 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() debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_install mv debian/srst2/usr/lib/*/dist-packages/srst2/* debian/srst2/usr/share/srst2 rm -rf debian/*/usr/bin/*.py debian/srst2/usr/lib/*/dist-packages/ # fix line endings to make sure Python3 interpreter will be found find debian/*/usr/share -name "VFDB*" -exec dos2unix \{\} \; dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDB_cdhit_to_csv.py to Unix format... dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDBgenus.py to Unix format... sed -i '1s:^#!/usr/local.*python[.0-9]*$:#!/usr/bin/python3:' debian/srst2/usr/share/srst2/qsub_srst2.py find debian -name __pycache__ -type d | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' debian/rules override_dh_installdocs make[1]: Entering directory '/build/reproducible-path/srst2-0.2.0' dh_installdocs sed -i "s?sys.path.append(os.path.abspath(os.path.join(os.path.dirname(__file__).*scripts.*?sys.path.append(os.path.abspath('/usr/share/srst2'))?" debian/srst2/usr/share/doc/srst2/tests/*.py make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/srst2/usr/bin/srst2 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/srst2-0.2.0' dh_fixperms chmod +x debian/srst2/usr/share/srst2/database_clustering/get_genus_vfdb.sh chmod +x debian/srst2/usr/share/srst2/database_clustering/get_all_vfdb.sh chmod -x debian/srst2/usr/share/srst2/database_clustering/align_plot_tree_min3.py for py in `find debian -name "*.py"` ; do \ if head -n 1 $py | grep -q '^#! */usr/bin/.*python' ; then chmod +x $py ; fi ; \ done make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -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 'srst2' in '../srst2_0.2.0-13_amd64.deb'. dpkg-genbuildinfo --build=binary -O../srst2_0.2.0-13_amd64.buildinfo dpkg-genchanges --build=binary -O../srst2_0.2.0-13_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: user script /srv/workspace/pbuilder/4133556/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/4133556 and its subdirectories I: Current time: Sun Oct 18 18:48:16 +14 2026 I: pbuilder-time-stamp: 1792298896 + false + set +x Sun Oct 18 04:48:16 UTC 2026 I: Signing ./b2/srst2_0.2.0-13_amd64.buildinfo as srst2_0.2.0-13_amd64.buildinfo.asc Sun Oct 18 04:48:16 UTC 2026 I: Signed ./b2/srst2_0.2.0-13_amd64.buildinfo as ./b2/srst2_0.2.0-13_amd64.buildinfo.asc Sun Oct 18 04:48:16 UTC 2026 - build #2 for srst2/forky/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Sun Oct 18 04:48:16 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-7E6EQQYc, removing. /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu: total 68 drwxrwxr-x 2 jenkins jenkins 4096 Sep 14 22:23 b1 drwxrwxr-x 2 jenkins jenkins 4096 Sep 14 22:25 b2 -rw------- 1 jenkins jenkins 49338 Sep 14 22:23 rbuildlog.WtPEAXK -rw-rw-r-- 1 jenkins jenkins 2269 Dec 5 2024 srst2_0.2.0-13.dsc /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b1: total 160 -rw-r--r-- 1 jenkins jenkins 45698 Sep 14 22:23 build.log -rw-r--r-- 1 jenkins jenkins 18620 Sep 14 22:23 srst2_0.2.0-13.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2269 Sep 14 22:23 srst2_0.2.0-13.dsc -rw-r--r-- 1 jenkins jenkins 6587 Sep 14 22:23 srst2_0.2.0-13_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 7469 Sep 14 22:23 srst2_0.2.0-13_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1128 Sep 14 22:23 srst2_0.2.0-13_amd64.changes -rw-r--r-- 1 jenkins jenkins 61288 Sep 14 22:23 srst2_0.2.0-13_amd64.deb -rw-r--r-- 1 jenkins jenkins 1280 Sep 14 22:23 srst2_0.2.0-13_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b2: total 156 -rw-rw-r-- 1 jenkins jenkins 47624 Sep 14 22:25 build.log -rw-r--r-- 1 jenkins jenkins 18620 Sep 14 22:25 srst2_0.2.0-13.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2269 Sep 14 22:25 srst2_0.2.0-13.dsc -rw-rw-r-- 1 jenkins jenkins 6587 Sep 14 22:25 srst2_0.2.0-13_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 7469 Sep 14 22:25 srst2_0.2.0-13_amd64.buildinfo.asc -rw-rw-r-- 1 jenkins jenkins 1128 Sep 14 22:25 srst2_0.2.0-13_amd64.changes -rw-r--r-- 1 jenkins jenkins 61288 Sep 14 22:25 srst2_0.2.0-13_amd64.deb -rw-rw-r-- 1 jenkins jenkins 1280 Sep 14 22:25 srst2_0.2.0-13_source.changes Sun Sep 14 22:25:17 UTC 2025 I: Deleting $TMPDIR on ionos5-amd64.debian.net. Sun Sep 14 22:25:17 UTC 2025 I: srst2_0.2.0-13_amd64.changes: Format: 1.8 Date: Thu, 05 Dec 2024 22:13:26 +0100 Source: srst2 Binary: srst2 Architecture: amd64 Version: 0.2.0-13 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: srst2 - Short Read Sequence Typing for Bacterial Pathogens Closes: 1087097 Changes: srst2 (0.2.0-13) unstable; urgency=medium . * syntax-warning.patch: new: fix Python SyntaxWarning. (Closes: #1087097) * d/patches/*: normalize last update timestamp. Checksums-Sha1: ef9278e021205b31358bcaa17b8fe1677862d3a7 6587 srst2_0.2.0-13_amd64.buildinfo 5f722d1287740cce67ddea1cce3cc8d077d19be3 61288 srst2_0.2.0-13_amd64.deb Checksums-Sha256: 877c571b212e88309a00b5714221c4d5d259a6a8ad1ae1d72dd43dde7c6e895d 6587 srst2_0.2.0-13_amd64.buildinfo 37141e9f8eb509d0172e3236ad3dfeefee01641fed82a7ba985c99045ce1cca9 61288 srst2_0.2.0-13_amd64.deb Files: d87936ba83d1081d079b4e6f1a83b17c 6587 science optional srst2_0.2.0-13_amd64.buildinfo cecf67e018d45cd5e6ecee791c9aae36 61288 science optional srst2_0.2.0-13_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/srst2_0.2.0-13.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/srst2_0.2.0-13.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/forky/amd64/srst2_0.2.0-13.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/forky/amd64/srst2_0.2.0-13.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/forky/amd64/srst2_0.2.0-13_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/amd64/srst2_0.2.0-13.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-09-14 22:23:03.161752652 +0000 +++ b2/build.log 2025-09-14 22:25:17.397918288 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Sep 14 10:20:19 -12 2025 -I: pbuilder-time-stamp: 1757888419 +I: Current time: Sun Oct 18 18:46:04 +14 2026 +I: pbuilder-time-stamp: 1792298764 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -30,53 +30,85 @@ dpkg-source: info: applying syntax-warning.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3753085/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Oct 18 04:46 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/4133556/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' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='bdff2c14691941c4b861c608273e66e4' - 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='3753085' - PS1='# ' - PS2='> ' + INVOCATION_ID=6bd8def1eef04cbb93f596ce99dc05cf + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=4133556 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.S7lPaVXu/pbuilderrc_a4Mb --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.S7lPaVXu/b1 --logfile b1/build.log srst2_0.2.0-13.dsc' - SUDO_GID='110' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='105' - 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' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/pbuilderrc_MDNX --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b2 --logfile b2/build.log srst2_0.2.0-13.dsc' + SUDO_GID=110 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://213.165.73.152:3128 I: uname -a - Linux ionos1-amd64 6.12.43+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.43-1 (2025-08-27) x86_64 GNU/Linux + Linux i-capture-the-hostname 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/3753085/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -221,7 +253,7 @@ Get: 91 http://deb.debian.org/debian forky/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 92 http://deb.debian.org/debian forky/main amd64 python3-scipy amd64 1.15.3-1.1 [17.0 MB] Get: 93 http://deb.debian.org/debian forky/main amd64 samtools amd64 1.22.1-1 [697 kB] -Fetched 53.3 MB in 5s (10.9 MB/s) +Fetched 53.3 MB in 1s (104 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (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 ... 19917 files and directories currently installed.) @@ -536,8 +568,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Sun Sep 14 22:21:48 UTC 2025. -Universal Time is now: Sun Sep 14 22:21:48 UTC 2025. +Local time is now: Sun Oct 18 04:47:38 UTC 2026. +Universal Time is now: Sun Oct 18 04:47:38 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... @@ -622,7 +654,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/srst2-0.2.0/ && 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 > ../srst2_0.2.0-13_source.changes +I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/srst2-0.2.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../srst2_0.2.0-13_source.changes dpkg-buildpackage: info: source package srst2 dpkg-buildpackage: info: source version 0.2.0-13 dpkg-buildpackage: info: source distribution unstable @@ -655,12 +691,12 @@ cd tests && python3 test_slurm_srst2.py && python3 test_srst2.py ........... ---------------------------------------------------------------------- -Ran 11 tests in 0.079s +Ran 11 tests in 0.023s OK ................. ---------------------------------------------------------------------- -Ran 17 tests in 0.048s +Ran 17 tests in 0.026s OK make[1]: Leaving directory '/build/reproducible-path/srst2-0.2.0' @@ -735,12 +771,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/4133556/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/3753085 and its subdirectories -I: Current time: Sun Sep 14 10:23:01 -12 2025 -I: pbuilder-time-stamp: 1757888581 +I: removing directory /srv/workspace/pbuilder/4133556 and its subdirectories +I: Current time: Sun Oct 18 18:48:16 +14 2026 +I: pbuilder-time-stamp: 1792298896 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/amd64/srst2_0.2.0-13.diff: 66.8% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/amd64/srst2_0.2.0-13.diff.gz b2/build.log: 79.2% -- replaced with stdout Compressing the 1st log... b1/build.log: 79.7% -- replaced with stdout Sun Sep 14 22:25:18 UTC 2025 I: diffoscope 306 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_srst2_forky_amd64_1757888718 + touch /var/log/reproducible-builds/diffoscope_stamp_srst2_forky_amd64_1757888718 + RESULT=0 + systemd-run '--description=diffoscope on srst2/0.2.0-13 in forky/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_25-53963 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu --run-session -c jenkins-reproducible-forky-diffoscope-45feb301-637c-430c-9653-fe19337400a2 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/dbd-tmp-Z3LTzEk ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/srst2_0.2.0-13.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/srst2_0.2.0-13.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/srst2_0.2.0-13.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b1/srst2_0.2.0-13_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b2/srst2_0.2.0-13_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_25-53963.service; invocation ID: dd186a00069f4e0da24ce7597630be99 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/srst2_0.2.0-13.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/srst2_0.2.0-13.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/srst2_0.2.0-13.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b1/srst2_0.2.0-13_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.S7lPaVXu/b2/srst2_0.2.0-13_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: 211ms CPU time consumed: 169ms Memory peak: 17.6M (swap: 0B) _ ____ ___ _ __ ___| |_|___ \ / __| '__/ __| __| __) | \__ \ | \__ \ |_ / __/ |___/_| |___/\__|_____| Sun Sep 14 22:25:19 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Sun Sep 14 22:25:19 UTC 2025 I: srst2 from forky built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-09-14 22:25:20] INFO: Starting at 2025-09-14 22:25:20.039884 [2025-09-14 22:25:20] INFO: Generating the pages of 1 package(s) [2025-09-14 22:25:20] CRITICAL: https://tests.reproducible-builds.org/debian/forky/amd64/srst2 didn't produce a buildlog, even though it has been built. [2025-09-14 22:25:20] CRITICAL: https://tests.reproducible-builds.org/debian/forky/arm64/srst2 didn't produce a buildlog, even though it has been built. [2025-09-14 22:25:20] INFO: Finished at 2025-09-14 22:25:20.602470, took: 0:00:00.562589 Sun Sep 14 22:25:20 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/forky/amd64/srst2.html Sun Sep 14 22:25:20 UTC 2025 I: Removing signed srst2_0.2.0-13_amd64.buildinfo.asc files: removed './b1/srst2_0.2.0-13_amd64.buildinfo.asc' removed './b2/srst2_0.2.0-13_amd64.buildinfo.asc' 1757888720 amd64 forky srst2 Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/srst2_0.2.0-13.rbuild.log: 76.8% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/srst2_0.2.0-13.rbuild.log.gz [2025-09-14 22:25:20] INFO: Starting at 2025-09-14 22:25:20.928199 [2025-09-14 22:25:21] INFO: Generating the pages of 1 package(s) [2025-09-14 22:25:21] CRITICAL: https://tests.reproducible-builds.org/debian/forky/arm64/srst2 didn't produce a buildlog, even though it has been built. [2025-09-14 22:25:21] INFO: Finished at 2025-09-14 22:25:21.421609, took: 0:00:00.493414 All cleanup done. Sun Sep 14 22:25:21 UTC 2025 - total duration: 0h 5m 7s. Sun Sep 14 22:25:21 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-pW8yq4RH, removing. Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 5min 9.347s CPU time consumed: 3.568s Memory peak: 61.4M (swap: 0B)