Sun Sep 28 05:57:15 UTC 2025 I: starting to build pyfastx/forky/arm64 on jenkins on '2025-09-28 05:56' Sun Sep 28 05:57:15 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_7/99177/console.log Sun Sep 28 05:57:15 UTC 2025 I: Downloading source for forky/pyfastx=2.2.0-1 --2025-09-28 05:57:15-- http://deb.debian.org/debian/pool/main/p/pyfastx/pyfastx_2.2.0-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2289 (2.2K) [text/prs.lines.tag] Saving to: ‘pyfastx_2.2.0-1.dsc’ 0K .. 100% 285M=0s 2025-09-28 05:57:15 (285 MB/s) - ‘pyfastx_2.2.0-1.dsc’ saved [2289/2289] Sun Sep 28 05:57:15 UTC 2025 I: pyfastx_2.2.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pyfastx Binary: pyfastx, python3-pyfastx Architecture: any Version: 2.2.0-1 Maintainer: Debian Med Packaging Team Uploaders: Étienne Mollier Homepage: https://github.com/lmdu/pyfastx Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/pyfastx Vcs-Git: https://salsa.debian.org/med-team/pyfastx.git Testsuite: autopkgtest Testsuite-Triggers: python3-all Build-Depends: debhelper-compat (= 13), dh-python, libsqlite3-dev, zlib1g-dev, python3-all-dev, python3-indexed-gzip, python3-pyfaidx , python3-setuptools Package-List: pyfastx deb science optional arch=any python3-pyfastx deb python optional arch=any Checksums-Sha1: c4ebb39aab751c03780ebce692b5e6d2493139bd 230572 pyfastx_2.2.0.orig.tar.xz 6adf4e5573d8ca314c6175ce7de334e5ce4741af 7824 pyfastx_2.2.0-1.debian.tar.xz Checksums-Sha256: baa408e8cb51aff73b661bc013c4df0a6c95aca350a46547955829cc3c20cb1f 230572 pyfastx_2.2.0.orig.tar.xz 1e5e74cb8eead9de4f97622084049f937c5674dd98a010351d2de2c517a57533 7824 pyfastx_2.2.0-1.debian.tar.xz Files: 184d8aca04747d77857b7b0276ebf6bc 230572 pyfastx_2.2.0.orig.tar.xz 3e8bd2effb638675798a0eb70ec88ca1 7824 pyfastx_2.2.0-1.debian.tar.xz Dgit: d61f9d6af8bb6e7b6767e4f353bea694c25d97c7 debian archive/debian/2.2.0-1 https://git.dgit.debian.org/pyfastx -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmejTvgUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqmgA/+ItX9oIGewU611txw7u4rCnVF12fe fgeqsniEvFVGfzrJg/ySbHOQrPe97nsnaRAe9+5kYAUBf1Jw7CrK77JSRU9iR4Mg Gquf0Nb4P1Zwfhb7ObFwERTHZdjQI+MSlNSbaO0/Ecye4z+rGuDxtHxK0mCtuaTR I/WuuNywLq7VWe3PiQ0hwBlr3TyujooyZJ7bGHwdcwLCkCfqfMJcy4cE3F9FGWZG t1q5T5JxSkSihqebGN9tgueqgAqD5UAdlvvIzv4vbycHNLy7JvEPkVrtmv4vp6E/ 5T3VKcvUBZDjmuOCSFLGyLf1iCmu8XEYfpSmh/+BjD/E8WvyRsVr9TvN9wHZddid K30dW0kAS5yX/oAqz8UsFUFHGPI4wRG0Z+0/QJJXVXA4kKww61fZtKvd6aZrscfh KUVF8C3aYn0K5nL6mtr3wczbyawy9EXf/0DqB5N/aTjftSuPTz+6ygX1k5EQSgSh Q5TgzsaBpeH13MI7ugFy6O2f2dgv70oDuthHY3dZA7CdxCANezes5275xG29LPyi WrCHXJKnDNDV5YGaNWJYw+M39bPY0h84UvAGIQZHiNz8WCZxrrsUajkXxZTKcTcv WhwsQvdVxHsjHVSQkYB7hvJFPw9/OLL+4tJ+DwfmzlnVZqQXgFtYjegIa6v96dBY qN3hkVAL7qPZymE= =1S4B -----END PGP SIGNATURE----- Sun Sep 28 05:57:15 UTC 2025 I: Checking whether the package is not for us Sun Sep 28 05:57:15 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net. Sun Sep 28 05:57:15 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Sun Sep 28 05:58:42 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Sep 27 17:57:17 -12 2025 I: pbuilder-time-stamp: 1759039037 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 [pyfastx_2.2.0-1.dsc] I: copying [./pyfastx_2.2.0.orig.tar.xz] I: copying [./pyfastx_2.2.0-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./pyfastx_2.2.0-1.dsc: no acceptable signature found dpkg-source: info: extracting pyfastx in pyfastx-2.2.0 dpkg-source: info: unpacking pyfastx_2.2.0.orig.tar.xz dpkg-source: info: unpacking pyfastx_2.2.0-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0001-t-test_sequence.py.patch dpkg-source: info: applying use_debian_packaged_components.patch dpkg-source: info: applying build-options.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/790522/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='af09c38b5da44477a15d156fcb5d202b' 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='790522' 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.Rja3hzpG/pbuilderrc_CGLs --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.Rja3hzpG/b1 --logfile b1/build.log pyfastx_2.2.0-1.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/790522/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, libsqlite3-dev, zlib1g-dev, python3-all-dev, python3-indexed-gzip, python3-pyfaidx, python3-setuptools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20022 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-indexed-gzip; however: Package python3-indexed-gzip is not installed. pbuilder-satisfydepends-dummy depends on python3-pyfaidx; however: Package python3-pyfaidx is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libjs-sphinxdoc{a} liblapack3{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libsqlite3-dev{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-all{a} python3-all-dev{a} python3-autocommand{a} python3-dev{a} python3-indexed-gzip{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-packaging{a} python3-pkg-resources{a} python3-pyfaidx{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-biopython wget 0 packages upgraded, 75 newly installed, 0 to remove and 0 not upgraded. Need to get 35.3 MB of archives. After unpacking 180 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 libexpat1 arm64 2.7.3-1 [96.5 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1.2 [138 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libblas3 arm64 3.12.1-7 [135 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libgfortran5 arm64 15.2.0-4 [371 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 liblapack3 arm64 3.12.1-7 [1846 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 python3-numpy arm64 1:2.2.4+ds-1.2 [3620 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-1 [94.3 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-1 [316 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 35 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.27 [92.2 kB] Get: 36 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-5 [540 kB] Get: 37 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 38 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 40 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 41 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 42 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 43 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 44 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.2 [582 kB] Get: 45 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 46 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian forky/main arm64 debhelper all 13.27 [940 kB] Get: 49 http://deb.debian.org/debian forky/main arm64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian forky/main arm64 libexpat1-dev arm64 2.7.3-1 [150 kB] Get: 51 http://deb.debian.org/debian forky/main arm64 libjs-sphinxdoc all 8.2.3-6 [27.5 kB] Get: 52 http://deb.debian.org/debian forky/main arm64 libpython3.13 arm64 3.13.7-1 [1978 kB] Get: 53 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 54 http://deb.debian.org/debian forky/main arm64 libpython3.13-dev arm64 3.13.7-1 [4924 kB] Get: 55 http://deb.debian.org/debian forky/main arm64 libpython3-dev arm64 3.13.7-1 [10.5 kB] Get: 56 http://deb.debian.org/debian forky/main arm64 libpython3-all-dev arm64 3.13.7-1 [1068 B] Get: 57 http://deb.debian.org/debian forky/main arm64 libsqlite3-dev arm64 3.46.1-8 [1098 kB] Get: 58 http://deb.debian.org/debian forky/main arm64 python3-all arm64 3.13.7-1 [1044 B] Get: 59 http://deb.debian.org/debian forky/main arm64 python3.13-dev arm64 3.13.7-1 [504 kB] Get: 60 http://deb.debian.org/debian forky/main arm64 python3-dev arm64 3.13.7-1 [26.1 kB] Get: 61 http://deb.debian.org/debian forky/main arm64 python3-all-dev arm64 3.13.7-1 [1068 B] Get: 62 http://deb.debian.org/debian forky/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 63 http://deb.debian.org/debian forky/main arm64 python3-indexed-gzip arm64 1.8.7-3+b3 [903 kB] Get: 64 http://deb.debian.org/debian forky/main arm64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 65 http://deb.debian.org/debian forky/main arm64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 66 http://deb.debian.org/debian forky/main arm64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 67 http://deb.debian.org/debian forky/main arm64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 68 http://deb.debian.org/debian forky/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 69 http://deb.debian.org/debian forky/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 70 http://deb.debian.org/debian forky/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 71 http://deb.debian.org/debian forky/main arm64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 72 http://deb.debian.org/debian forky/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 73 http://deb.debian.org/debian forky/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 74 http://deb.debian.org/debian forky/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 75 http://deb.debian.org/debian forky/main arm64 python3-pyfaidx all 0.8.1.3-2 [29.1 kB] Fetched 35.3 MB in 0s (116 MB/s) Preconfiguring packages ... 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Setting up autotools-dev (20240727.1) ... Setting up libblas3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libexpat1-dev:arm64 (2.7.3-1) ... Setting up libsqlite3-dev:arm64 (3.46.1-8) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1.2) ... Setting up autopoint (0.23.1-2) ... Setting up libjs-sphinxdoc (8.2.3-6) ... Setting up libgfortran5:arm64 (15.2.0-4) ... Setting up autoconf (2.72-3.1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libffi8:arm64 (3.5.2-2) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up netbase (6.5) ... Setting up readline-common (8.3-3) ... 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:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up libreadline8t64:arm64 (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:arm64 (3.13.7-1) ... Setting up libpython3-stdlib:arm64 (3.13.7-1) ... Setting up libpython3.13:arm64 (3.13.7-1) ... Setting up python3.13 (3.13.7-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.13.7-1) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/pyfastx-2.2.0/ && 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 > ../pyfastx_2.2.0-1_source.changes dpkg-buildpackage: info: source package pyfastx dpkg-buildpackage: info: source version 2.2.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem pybuild --with python3 dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running clean removing '/build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build' (and everything under it) 'build/bdist.linux-aarch64' 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 --with python3 dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py config /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running config debian/rules execute_before_dh_auto_build make[1]: Entering directory '/build/reproducible-path/pyfastx-2.2.0' # Upstream originally vendored these files straight in src/, but # stopped for some reason. We're pulling them instead from the # package python3-indexed-gzip. cp --update=none /usr/lib/python3/dist-packages/indexed_gzip/zran.c src/ cp --update=none /usr/lib/python3/dist-packages/indexed_gzip/zran.h src/ cp --update=none /usr/lib/python3/dist-packages/indexed_gzip/zran_file_util.c src/ cp --update=none /usr/lib/python3/dist-packages/indexed_gzip/zran_file_util.h src/ make[1]: Leaving directory '/build/reproducible-path/pyfastx-2.2.0' dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running build running build_py copying pyfastxcli.py -> /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build running build_ext building 'pyfastx' extension creating build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/fakeys.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fakeys.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/fasta.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fasta.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/fastq.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fastq.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/fastx.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fastx.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/fqkeys.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fqkeys.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/index.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/index.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/kseq.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/kseq.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/module.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/module.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE /build/reproducible-path/pyfastx-2.2.0/src/module.c: In function ‘pyfastx_reverse_complement’: /build/reproducible-path/pyfastx-2.2.0/src/module.c:57:32: warning: passing argument 1 of ‘reverse_complement_seq’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 57 | reverse_complement_seq(s); | ^ In file included from /build/reproducible-path/pyfastx-2.2.0/src/fastq.h:8, from /build/reproducible-path/pyfastx-2.2.0/src/module.c:3: /build/reproducible-path/pyfastx-2.2.0/src/util.h:16:35: note: expected ‘char *’ but argument is of type ‘const char *’ 16 | void reverse_complement_seq(char *seq); | ~~~~~~^~~ aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/read.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/read.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/sequence.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/sequence.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/util.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/util.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/zran.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/zran.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c /build/reproducible-path/pyfastx-2.2.0/src/zran_file_util.c -o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/zran_file_util.o -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.2.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fakeys.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fasta.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fastq.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fastx.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/fqkeys.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/index.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/kseq.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/module.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/read.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/sequence.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/util.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/zran.o build/temp.linux-aarch64-cpython-313/build/reproducible-path/pyfastx-2.2.0/src/zran_file_util.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/pyfastx.cpython-313-aarch64-linux-gnu.so -lsqlite3 -Wl,-z,relro -Wl,-z,now /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. dh_auto_test -O--buildsystem=pybuild I: pybuild pybuild:308: mkdir -pv /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/src && cp -v src/version.h /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/src mkdir: created directory '/build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/src' 'src/version.h' -> '/build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/src/version.h' I: pybuild base:311: cd /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build; python3.13 -m unittest discover -v test_id_exception (tests.test_fakeys.IdentifierTest.test_id_exception) ... ok test_key_identifier (tests.test_fakeys.IdentifierTest.test_key_identifier) ... ok test_key_repr (tests.test_fakeys.IdentifierTest.test_key_repr) ... ok test_key_slice (tests.test_fakeys.IdentifierTest.test_key_slice) ... ok test_keys_filter (tests.test_fakeys.IdentifierTest.test_keys_filter) ... ok test_keys_sort (tests.test_fakeys.IdentifierTest.test_keys_sort) ... ok test_build (tests.test_fasta.FastaTest.test_build) ... ok test_exception (tests.test_fasta.FastaTest.test_exception) ... ok test_fasta (tests.test_fasta.FastaTest.test_fasta) ... ok test_iter_full_name (tests.test_fasta.FastaTest.test_iter_full_name) ... ok test_iter_object (tests.test_fasta.FastaTest.test_iter_object) ... ok test_iter_tuple (tests.test_fasta.FastaTest.test_iter_tuple) ... ok test_iter_upper (tests.test_fasta.FastaTest.test_iter_upper) ... ok test_iter_upper_full_name (tests.test_fasta.FastaTest.test_iter_upper_full_name) ... ok test_key_func (tests.test_fasta.FastaTest.test_key_func) ... ok test_module (tests.test_fasta.FastaTest.test_module) ... ok test_no_upper (tests.test_fasta.FastaTest.test_no_upper) ... ok test_repr (tests.test_fasta.FastaTest.test_repr) ... ok test_seq_fetch (tests.test_fasta.FastaTest.test_seq_fetch) ... ok test_seq_flank (tests.test_fasta.FastaTest.test_seq_flank) ... ok test_seq_type (tests.test_fasta.FastaTest.test_seq_type) ... ok test_statistics (tests.test_fasta.FastaTest.test_statistics) ... ok test_build (tests.test_fastq.FastqTest.test_build) ... ok test_exception (tests.test_fastq.FastqTest.test_exception) ... ok test_fastq (tests.test_fastq.FastqTest.test_fastq) ... ok test_full_name (tests.test_fastq.FastqTest.test_full_name) ... ok test_iter_object (tests.test_fastq.FastqTest.test_iter_object) ... ok test_iter_tuple (tests.test_fastq.FastqTest.test_iter_tuple) ... ok test_negative (tests.test_fastq.FastqTest.test_negative) ... ok test_platform (tests.test_fastq.FastqTest.test_platform) ... ok test_read_len (tests.test_fastq.FastqTest.test_read_len) ... ok test_repr (tests.test_fastq.FastqTest.test_repr) ... ok test_exception (tests.test_fastx.FastxTest.test_exception) ... ok test_fasta_iter (tests.test_fastx.FastxTest.test_fasta_iter) ... ok test_fasta_upper (tests.test_fastx.FastxTest.test_fasta_upper) ... ok test_fastq_iter (tests.test_fastx.FastxTest.test_fastq_iter) ... ok test_fastx_repr (tests.test_fastx.FastxTest.test_fastx_repr) ... ok test_exception (tests.test_fqkeys.FastxTest.test_exception) ... ok test_fastq_key (tests.test_fqkeys.FastxTest.test_fastq_key) ... ok test_read (tests.test_read.ReadTest.test_read) ... ok test_read_description (tests.test_read.ReadTest.test_read_description) ... ok test_read_raw (tests.test_read.ReadTest.test_read_raw) ... ok test_read_seq (tests.test_read.ReadTest.test_read_seq) ... ok test_repr (tests.test_read.ReadTest.test_repr) ... ok test_full_compo (tests.test_sequence.SequenceTest.test_full_compo) ... ok test_seq_by_index (tests.test_sequence.SequenceTest.test_seq_by_index) ... ok test_seq_by_key (tests.test_sequence.SequenceTest.test_seq_by_key) ... ok test_seq_content (tests.test_sequence.SequenceTest.test_seq_content) ... ok test_seq_exception (tests.test_sequence.SequenceTest.test_seq_exception) ... ok test_seq_iter (tests.test_sequence.SequenceTest.test_seq_iter) ... ok test_seq_raw (tests.test_sequence.SequenceTest.test_seq_raw) ... ok test_seq_repr (tests.test_sequence.SequenceTest.test_seq_repr) ... ok test_seq_reverse_complement (tests.test_sequence.SequenceTest.test_seq_reverse_complement) ... ok test_seq_slice (tests.test_sequence.SequenceTest.test_seq_slice) ... ok test_seq_by_index (tests.test_sequence_error.SequenceErrorTest.test_seq_by_index) ... ok test_seq_by_key (tests.test_sequence_error.SequenceErrorTest.test_seq_by_key) ... ok ---------------------------------------------------------------------- Ran 56 tests in 2.361s OK I: pybuild pybuild:334: rm -rvf /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/src /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/non.fa removed '/build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/src/version.h' removed directory '/build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/src' removed '/build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/non.fa' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/pyfastx-2.2.0/debian/tmp /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running install /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() running build running build_py running build_ext running install_lib creating /build/reproducible-path/pyfastx-2.2.0/debian/tmp/usr/lib/python3.13/dist-packages copying /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/pyfastx.cpython-313-aarch64-linux-gnu.so -> /build/reproducible-path/pyfastx-2.2.0/debian/tmp/usr/lib/python3.13/dist-packages copying /build/reproducible-path/pyfastx-2.2.0/.pybuild/cpython3_3.13/build/pyfastxcli.py -> /build/reproducible-path/pyfastx-2.2.0/debian/tmp/usr/lib/python3.13/dist-packages byte-compiling /build/reproducible-path/pyfastx-2.2.0/debian/tmp/usr/lib/python3.13/dist-packages/pyfastxcli.py to pyfastxcli.cpython-313.pyc running install_egg_info running egg_info creating pyfastx.egg-info writing pyfastx.egg-info/PKG-INFO writing dependency_links to pyfastx.egg-info/dependency_links.txt writing entry points to pyfastx.egg-info/entry_points.txt writing top-level names to pyfastx.egg-info/top_level.txt writing manifest file 'pyfastx.egg-info/SOURCES.txt' reading manifest file 'pyfastx.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'pyfastx.egg-info/SOURCES.txt' Copying pyfastx.egg-info to /build/reproducible-path/pyfastx-2.2.0/debian/tmp/usr/lib/python3.13/dist-packages/pyfastx-2.2.0.egg-info Skipping SOURCES.txt running install_scripts Installing pyfastx script to /build/reproducible-path/pyfastx-2.2.0/debian/tmp/usr/bin dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild debian/rules execute_after_dh_installdocs make[1]: Entering directory '/build/reproducible-path/pyfastx-2.2.0' # Deduplicate changelog entries flagged by lintian. rm debian/pyfastx/usr/share/doc/pyfastx/docs/changelog.rst* cd debian/pyfastx/usr/share/doc/pyfastx/docs \ && ln -s ../changelog.gz changelog.rst.gz make[1]: Leaving directory '/build/reproducible-path/pyfastx-2.2.0' dh_installchangelogs -O--buildsystem=pybuild dh_installexamples -O--buildsystem=pybuild debian/rules execute_after_dh_installexamples make[1]: Entering directory '/build/reproducible-path/pyfastx-2.2.0' # Remove duplicate uncompressed files caused by the nature of the test; # we can get them back during the CLI test. rm debian/pyfastx/usr/share/doc/pyfastx/examples/test.fa rm debian/pyfastx/usr/share/doc/pyfastx/examples/test.fq make[1]: Leaving directory '/build/reproducible-path/pyfastx-2.2.0' dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/pyfastx/usr/bin/pyfastx dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Depends field of package pyfastx: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'pyfastx' in '../pyfastx_2.2.0-1_arm64.deb'. dpkg-deb: building package 'python3-pyfastx' in '../python3-pyfastx_2.2.0-1_arm64.deb'. dpkg-deb: building package 'python3-pyfastx-dbgsym' in '../python3-pyfastx-dbgsym_2.2.0-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../pyfastx_2.2.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../pyfastx_2.2.0-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full 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/790522 and its subdirectories I: Current time: Sat Sep 27 17:58:41 -12 2025 I: pbuilder-time-stamp: 1759039121 Sun Sep 28 05:58:42 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink03-arm64.debian.net. Sun Sep 28 05:58:42 UTC 2025 I: Preparing to do remote build '2' on codethink03-arm64.debian.net. Sun Sep 28 05:59:45 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. Sun Sep 28 05:59:45 UTC 2025 I: pyfastx_2.2.0-1_arm64.changes: Format: 1.8 Date: Wed, 05 Feb 2025 12:11:29 +0100 Source: pyfastx Binary: pyfastx python3-pyfastx python3-pyfastx-dbgsym Architecture: arm64 Version: 2.2.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: pyfastx - fast random access to sequences from FASTA/Q file - command python3-pyfastx - fast random access to sequences from FASTA/Q file - python3 modul Changes: pyfastx (2.2.0-1) unstable; urgency=medium . * New upstream version 2.2.0 * d/patches/use_debian_packaged*: squash patches. use_debian_packaged_indexed-gzip.patch, use_debian_packaged_zlib.patch and a change to make sure we use Debian packaged sqlite3 are concatenated in a single use_debian_packaged_components.patch to make patch management lighter weight. * build-options.patch: new: propagate Debian build flags. * d/patches/*: normalise patches to follow DEP3. Checksums-Sha1: 782473e070d36d1215f2f56455121789494c92eb 6566 pyfastx_2.2.0-1_arm64.buildinfo e216f225861c8bb52c44d4f7f6e6061ddc3d0605 127716 pyfastx_2.2.0-1_arm64.deb 42aeac885b9da36eb1635b87d95ca4fe50076db0 129264 python3-pyfastx-dbgsym_2.2.0-1_arm64.deb 6fa0c7d20fdbf1d7a0d58af8bc9a3b4664d70a01 54468 python3-pyfastx_2.2.0-1_arm64.deb Checksums-Sha256: c9681ddcf9f35db15d6a009b4de17f0d6ae6797a110b0ee11c888a2bbc379258 6566 pyfastx_2.2.0-1_arm64.buildinfo 408fbc2bc42393fd66d5b140be5eba987f2956f522470b4daa5cc7a4cf2906be 127716 pyfastx_2.2.0-1_arm64.deb bed02579258fc4bd80dd4f77570c1080cafae233c9735095c5cebe598202df61 129264 python3-pyfastx-dbgsym_2.2.0-1_arm64.deb a2cbf80299ed563921ec15e705064189498994b45dff0c604d87c62397d697e1 54468 python3-pyfastx_2.2.0-1_arm64.deb Files: 39c792f90e270c27bb023c6be57f90bc 6566 science optional pyfastx_2.2.0-1_arm64.buildinfo c5d738373baeab1632d562432145dc4f 127716 science optional pyfastx_2.2.0-1_arm64.deb a0a4e91c563b1608948716c0e2ab59bd 129264 debug optional python3-pyfastx-dbgsym_2.2.0-1_arm64.deb 55988484380868e9910ba44a22122db5 54468 python optional python3-pyfastx_2.2.0-1_arm64.deb Sun Sep 28 05:59:46 UTC 2025 I: diffoscope 306 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_7-99177.service; invocation ID: 0f972f62b7704a348a7e7811d582df07 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Rja3hzpG/pyfastx_2.2.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Rja3hzpG/pyfastx_2.2.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Rja3hzpG/pyfastx_2.2.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Rja3hzpG/b1/pyfastx_2.2.0-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Rja3hzpG/b2/pyfastx_2.2.0-1_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call 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: 213ms CPU time consumed: 168ms Memory peak: 17.8M (swap: 0B) Sun Sep 28 05:59:50 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Sun Sep 28 05:59:50 UTC 2025 I: pyfastx from forky built successfully and reproducibly on arm64. Sun Sep 28 05:59:50 UTC 2025 I: Removing signed pyfastx_2.2.0-1_arm64.buildinfo.asc files: removed './b1/pyfastx_2.2.0-1_arm64.buildinfo.asc' removed './b2/pyfastx_2.2.0-1_arm64.buildinfo.asc'