Thu May 9 22:00:17 UTC 2024 I: starting to build pyfastx/unstable/arm64 on jenkins on '2024-05-09 21:59' Thu May 9 22:00:17 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_1/19528/console.log Thu May 9 22:00:17 UTC 2024 I: Downloading source for unstable/pyfastx=2.1.0-1 --2024-05-09 22:00:17-- http://deb.debian.org/debian/pool/main/p/pyfastx/pyfastx_2.1.0-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2292 (2.2K) [text/prs.lines.tag] Saving to: ‘pyfastx_2.1.0-1.dsc’ 0K .. 100% 304M=0s 2024-05-09 22:00:17 (304 MB/s) - ‘pyfastx_2.1.0-1.dsc’ saved [2292/2292] Thu May 9 22:00:17 UTC 2024 I: pyfastx_2.1.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pyfastx Binary: pyfastx, python3-pyfastx Architecture: any Version: 2.1.0-1 Maintainer: Debian Med Packaging Team Uploaders: Étienne Mollier Homepage: https://github.com/lmdu/pyfastx Standards-Version: 4.6.2 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: fdc420393162cb5fa05f9cc119a236ac2aacc4e9 230396 pyfastx_2.1.0.orig.tar.xz b9c10cd6ca57b2a9766c4fdeb25638d0cc9374f6 33604 pyfastx_2.1.0-1.debian.tar.xz Checksums-Sha256: 13af5bba7815829979f75646181db953bf56cc57cf144b6fd72c04ffb63c36b1 230396 pyfastx_2.1.0.orig.tar.xz bf16045ee60797c59fb64434de5b315b8729b93efe4f164436f696759159b96e 33604 pyfastx_2.1.0-1.debian.tar.xz Files: 97e910eb169d9eb8eb0e240627920aec 230396 pyfastx_2.1.0.orig.tar.xz 25c7ea2a205e1c01cd677239a887d450 33604 pyfastx_2.1.0-1.debian.tar.xz Dgit: 72387862b4e0b5de8264e95d2e3b14732b6e9552 debian archive/debian/2.1.0-1 https://git.dgit.debian.org/pyfastx -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmX2tZUUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdorOQ//bItZxms7uuoYDG01ITX8+p+X5d2U vmYFRuAvexIZaRg1dQhRi/KKtfQHtz3a0Bt6NS82LGBNuzHGBu8MKgotl0ZbNYnO qk8ZRaExJyQtQdcQ2GHiY4o4AkhGeHUyx5lt5Fd1tDnF5jzdTLvANwTsSIY/lURN 2DaJQqmJZjAa4DTrwE2fO09DHlx4ZrFKoIuY4Y8aynFloK+Q0Dnn44yhgZzdplX1 uLW4fSlsfZkraSwK9AMVvTlSCDDpigaS3TX23P6soZrjmg+7/h1re7yw1tNJkAS/ MQMsoNRnlE+FzPb0BQtD7StP8RdA8MtJ2o/mppXFedF8NURWoeeYVeHj1oGK1D9l pJQdl9udMB0MdMzHSPPdQu8UIVpR+gt63LS4pkCNdNovlwlb6RYpvix96BjmpI1I tyehKqpvldswDhb9FLt+cs1FWnAMSRfkrDftn3TZED39+gr2NFPXtoKSoPk6FlYX 3AQD6fAtfLoISEsnN7KNA4b7szkWRxuZNBinCqTMikX44bmJAPwoQtveTeJi7CXn CnxTKqeV4ej0s+Tnb+v4rCD+/cSE8vQw7BP2g+zlnlPoINFq80I1L6TPCSMQn4da R2cPAk/+vpz7wDOEQX8p6z4mvWu3Od2eQis0PBT7ucOD5MMhVRbaDGYTVPwtCv6i yaBr3koBvSLiG6g= =iqOg -----END PGP SIGNATURE----- Thu May 9 22:00:17 UTC 2024 I: Checking whether the package is not for us Thu May 9 22:00:17 UTC 2024 I: Starting 1st build on remote node codethink01-arm64.debian.net. Thu May 9 22:00:17 UTC 2024 I: Preparing to do remote build '1' on codethink01-arm64.debian.net. Thu May 9 22:01:23 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Jun 11 16:23:19 -12 2025 I: pbuilder-time-stamp: 1749702199 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [pyfastx_2.1.0-1.dsc] I: copying [./pyfastx_2.1.0.orig.tar.xz] I: copying [./pyfastx_2.1.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Mar 17 09:19:17 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pyfastx_2.1.0-1.dsc: no acceptable signature found dpkg-source: info: extracting pyfastx in pyfastx-2.1.0 dpkg-source: info: unpacking pyfastx_2.1.0.orig.tar.xz dpkg-source: info: unpacking pyfastx_2.1.0-1.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_indexed-gzip.patch dpkg-source: info: applying use_debian_packaged_zlib.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/871152/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='61f23cea55dd4f85bf08cc7f22c5accb' 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='871152' 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.h51YUChy/pbuilderrc_A1KH --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.h51YUChy/b1 --logfile b1/build.log pyfastx_2.1.0-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink01-arm64 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 11 14:05 /bin -> usr/bin I: user script /srv/workspace/pbuilder/871152/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 ... 19744 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} libfile-stripnondeterminism-perl{a} libgfortran5{a} libicu72{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.11t64{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libreadline8t64{a} libsqlite3-dev{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-all-dev{a} python3-dev{a} python3-distutils{a} python3-importlib-metadata{a} python3-indexed-gzip{a} python3-lib2to3{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-pkg-resources{a} python3-pyfaidx{a} python3-setuptools{a} python3-zipp{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} python3.12{a} python3.12-dev{a} python3.12-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 javascript-common libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-biopython wget 0 packages upgraded, 78 newly installed, 0 to remove and 0 not upgraded. Need to get 54.7 MB of archives. After unpacking 248 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.11-minimal arm64 3.11.9-1 [813 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.2-1 [88.7 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.11-minimal arm64 3.11.9-1 [1767 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.11.8-1 [26.3 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2024a-4 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-4 [69.3 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-4 [157 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libpython3.11-stdlib arm64 3.11.9-1 [1775 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 python3.11 arm64 3.11.9-1 [602 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.11.8-1 [9332 B] Get: 13 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.11.8-1 [27.4 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libpython3.12-minimal arm64 3.12.3-1 [802 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 python3.12-minimal arm64 3.12.3-1 [1931 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 22 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-4 [1130 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40-8 [93.0 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.12.1-1 [1394 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.71-3 [332 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.21-14 [496 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-7 [517 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 38 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.15.3 [901 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 python3-lib2to3 all 3.12.3-1 [77.6 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 python3-distutils all 3.12.3-1 [131 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 68.1.2-2 [468 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20240422 [107 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.0-3 [91.7 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libexpat1-dev arm64 2.6.2-1 [278 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14-20240429-1 [361 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libjs-sphinxdoc all 7.2.6-6 [150 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.0-3 [1757 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libpython3.11t64 arm64 3.11.9-1 [1814 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3.1 [915 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libpython3.11-dev arm64 3.11.9-1 [4358 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libpython3-dev arm64 3.11.8-1 [9564 B] Get: 62 http://deb.debian.org/debian unstable/main arm64 libpython3.12-stdlib arm64 3.12.3-1 [1889 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libpython3.12t64 arm64 3.12.3-1 [1948 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libpython3.12-dev arm64 3.12.3-1 [4745 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libpython3-all-dev arm64 3.11.8-1 [1072 B] Get: 66 http://deb.debian.org/debian unstable/main arm64 libsqlite3-dev arm64 3.45.3-1 [1042 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 python3.12 arm64 3.12.3-1 [659 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 python3-all arm64 3.11.8-1 [1056 B] Get: 69 http://deb.debian.org/debian unstable/main arm64 python3.11-dev arm64 3.11.9-1 [501 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 python3-dev arm64 3.11.8-1 [26.1 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 python3.12-dev arm64 3.12.3-1 [499 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 python3-all-dev arm64 3.11.8-1 [1072 B] Get: 73 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.2.0-1 [59.9 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 1.0.0-6 [6696 B] Get: 75 http://deb.debian.org/debian unstable/main arm64 python3-importlib-metadata all 4.12.0-1 [24.9 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:1.26.4+ds-8 [4219 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 python3-indexed-gzip arm64 1.7.0-1.1 [779 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 python3-pyfaidx all 0.8.1.1-2 [29.0 kB] Fetched 54.7 MB in 0s (125 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:arm64. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/pyfastx-2.1.0/ && 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_2.1.0-1_source.changes dpkg-buildpackage: info: source package pyfastx dpkg-buildpackage: info: source version 2.1.0-1 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: python3.12 setup.py clean running clean removing '/build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.12/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it I: pybuild base:311: python3.11 setup.py clean running clean removing '/build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.11' 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: python3.12 setup.py config running config I: pybuild base:311: python3.11 setup.py config running config debian/rules execute_before_dh_auto_build make[1]: Entering directory '/build/reproducible-path/pyfastx-2.1.0' # FIXME: we pull the zran files from indexed-gzip source package, which # does not expose this file in its binary package, so this is vendored # for the moment. Upstream originally vendored these files straight in # src/, but stopped for whatever reason, possibly introduction of a # library somewhere at some point. See #1038995 to track packaging. cp --no-clobber debian/zran/* src/ cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead make[1]: Leaving directory '/build/reproducible-path/pyfastx-2.1.0' dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3.12 setup.py build running build running build_py copying pyfastxcli.py -> /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.12/build running build_ext building 'pyfastx' extension creating build creating build/temp.linux-aarch64-cpython-312 creating build/temp.linux-aarch64-cpython-312/build creating build/temp.linux-aarch64-cpython-312/build/reproducible-path creating build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0 creating build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/fakeys.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fakeys.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/fasta.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fasta.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE /build/reproducible-path/pyfastx-2.1.0/src/fasta.c: In function ‘pyfastx_fasta_fetch’: /build/reproducible-path/pyfastx-2.1.0/src/fasta.c:443:34: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘long int’} [-Wsign-compare] 443 | if (strlen(name) >= self->index->cache_name.m) { | ^~ /build/reproducible-path/pyfastx-2.1.0/src/fasta.c: In function ‘pyfastx_fasta_composition’: /build/reproducible-path/pyfastx-2.1.0/src/fasta.c:1058:13: warning: unused variable ‘i’ [-Wunused-variable] 1058 | int i; | ^ aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/fastq.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fastq.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/fastx.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fastx.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/fqkeys.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fqkeys.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/index.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/index.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/kseq.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/kseq.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/module.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/module.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE /build/reproducible-path/pyfastx-2.1.0/src/module.c: In function ‘pyfastx_reverse_complement’: /build/reproducible-path/pyfastx-2.1.0/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-2.1.0/src/fastq.h:8, from /build/reproducible-path/pyfastx-2.1.0/src/module.c:3: /build/reproducible-path/pyfastx-2.1.0/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 -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/read.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/read.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/sequence.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/sequence.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE /build/reproducible-path/pyfastx-2.1.0/src/sequence.c: In function ‘pyfastx_sequence_get_fullseq’: /build/reproducible-path/pyfastx-2.1.0/src/sequence.c:90:32: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘long int’} [-Wsign-compare] 90 | if (strlen(self->name) >= self->index->cache_name.m) { | ^~ /build/reproducible-path/pyfastx-2.1.0/src/sequence.c: In function ‘pyfastx_sequence_subscript’: /build/reproducible-path/pyfastx-2.1.0/src/sequence.c:431:20: warning: variable ‘slice_len’ set but not used [-Wunused-but-set-variable] 431 | Py_ssize_t slice_len; | ^~~~~~~~~ aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/util.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/util.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/zran.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/zran.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.12 -c /build/reproducible-path/pyfastx-2.1.0/src/zran_file_util.c -o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/zran_file_util.o -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 -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fakeys.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fasta.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fastq.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fastx.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/fqkeys.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/index.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/kseq.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/module.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/read.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/sequence.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/util.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/zran.o build/temp.linux-aarch64-cpython-312/build/reproducible-path/pyfastx-2.1.0/src/zran_file_util.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.12/build/pyfastx.cpython-312-aarch64-linux-gnu.so -lsqlite3 I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py copying pyfastxcli.py -> /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.11/build running build_ext building 'pyfastx' extension creating build/temp.linux-aarch64-cpython-311 creating build/temp.linux-aarch64-cpython-311/build creating build/temp.linux-aarch64-cpython-311/build/reproducible-path creating build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0 creating build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/fakeys.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fakeys.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/fasta.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fasta.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE /build/reproducible-path/pyfastx-2.1.0/src/fasta.c: In function ‘pyfastx_fasta_fetch’: /build/reproducible-path/pyfastx-2.1.0/src/fasta.c:443:34: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘long int’} [-Wsign-compare] 443 | if (strlen(name) >= self->index->cache_name.m) { | ^~ /build/reproducible-path/pyfastx-2.1.0/src/fasta.c: In function ‘pyfastx_fasta_composition’: /build/reproducible-path/pyfastx-2.1.0/src/fasta.c:1058:13: warning: unused variable ‘i’ [-Wunused-variable] 1058 | int i; | ^ aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/fastq.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fastq.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/fastx.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fastx.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/fqkeys.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fqkeys.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/index.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/index.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/kseq.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/kseq.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/module.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/module.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE /build/reproducible-path/pyfastx-2.1.0/src/module.c: In function ‘pyfastx_reverse_complement’: /build/reproducible-path/pyfastx-2.1.0/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-2.1.0/src/fastq.h:8, from /build/reproducible-path/pyfastx-2.1.0/src/module.c:3: /build/reproducible-path/pyfastx-2.1.0/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 -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/read.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/read.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/sequence.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/sequence.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE /build/reproducible-path/pyfastx-2.1.0/src/sequence.c: In function ‘pyfastx_sequence_get_fullseq’: /build/reproducible-path/pyfastx-2.1.0/src/sequence.c:90:32: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘long int’} [-Wsign-compare] 90 | if (strlen(self->name) >= self->index->cache_name.m) { | ^~ /build/reproducible-path/pyfastx-2.1.0/src/sequence.c: In function ‘pyfastx_sequence_subscript’: /build/reproducible-path/pyfastx-2.1.0/src/sequence.c:431:20: warning: variable ‘slice_len’ set but not used [-Wunused-but-set-variable] 431 | Py_ssize_t slice_len; | ^~~~~~~~~ aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/util.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/util.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/zran.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/zran.o -Wno-unused-result -D_FILE_OFFSET_BITS=64 -D_LFS64_LARGEFILE -D_LARGEFILE64_SOURCE aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c /build/reproducible-path/pyfastx-2.1.0/src/zran_file_util.c -o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/zran_file_util.o -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 -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pyfastx-2.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fakeys.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fasta.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fastq.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fastx.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/fqkeys.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/index.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/kseq.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/module.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/read.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/sequence.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/util.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/zran.o build/temp.linux-aarch64-cpython-311/build/reproducible-path/pyfastx-2.1.0/src/zran_file_util.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.11/build/pyfastx.cpython-311-aarch64-linux-gnu.so -lsqlite3 dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py test running test WARNING: Testing via this command is deprecated and will be removed in a future version. Users looking for a generic test entry point independent of test runner are encouraged to use tox. /usr/lib/python3/dist-packages/setuptools/command/test.py:193: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! ir_d = dist.fetch_build_eggs(dist.install_requires) WARNING: The wheel package is not available. /usr/lib/python3/dist-packages/setuptools/command/test.py:194: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! tr_d = dist.fetch_build_eggs(dist.tests_require or []) WARNING: The wheel package is not available. /usr/lib/python3/dist-packages/setuptools/command/test.py:195: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! er_d = dist.fetch_build_eggs( WARNING: The wheel package is not available. 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' running build_ext copying /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.12/build/pyfastx.cpython-312-aarch64-linux-gnu.so -> 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 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_exception (tests.test_fqkeys.FastxTest.test_exception) ... ok test_fastq_key (tests.test_fqkeys.FastxTest.test_fastq_key) ... 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_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_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_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 ---------------------------------------------------------------------- Ran 56 tests in 0.793s OK pyfastx: 2.1.0; zlib: 1.3; sqlite: 3.45.3; zran: 1.7.0 I: pybuild base:311: python3.11 setup.py test running test WARNING: Testing via this command is deprecated and will be removed in a future version. Users looking for a generic test entry point independent of test runner are encouraged to use tox. /usr/lib/python3/dist-packages/setuptools/command/test.py:193: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! ir_d = dist.fetch_build_eggs(dist.install_requires) WARNING: The wheel package is not available. /usr/lib/python3/dist-packages/setuptools/command/test.py:194: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! tr_d = dist.fetch_build_eggs(dist.tests_require or []) WARNING: The wheel package is not available. /usr/lib/python3/dist-packages/setuptools/command/test.py:195: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! er_d = dist.fetch_build_eggs( WARNING: The wheel package is not available. running 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 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' running build_ext copying /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.11/build/pyfastx.cpython-311-aarch64-linux-gnu.so -> 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 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_exception (tests.test_fqkeys.FastxTest.test_exception) ... ok test_fastq_key (tests.test_fqkeys.FastxTest.test_fastq_key) ... 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_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_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_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 ---------------------------------------------------------------------- Ran 56 tests in 0.827s OK pyfastx: 2.1.0; zlib: 1.3; sqlite: 3.45.3; zran: 1.7.0 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/python3.12 setup.py install --root /build/reproducible-path/pyfastx-2.1.0/debian/tmp running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running build_ext running install_lib creating /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr creating /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib creating /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.12 creating /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.12/dist-packages copying /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.12/build/pyfastx.cpython-312-aarch64-linux-gnu.so -> /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.12/dist-packages copying /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.12/build/pyfastxcli.py -> /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.12/dist-packages byte-compiling /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.12/dist-packages/pyfastxcli.py to pyfastxcli.cpython-312.pyc running install_egg_info running 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 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-2.1.0/debian/tmp/usr/lib/python3.12/dist-packages/pyfastx-2.1.0.egg-info Skipping SOURCES.txt running install_scripts Installing pyfastx script to /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/bin I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/pyfastx-2.1.0/debian/tmp running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running build_ext running install_lib creating /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.11 creating /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.11/dist-packages copying /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.11/build/pyfastx.cpython-311-aarch64-linux-gnu.so -> /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.11/dist-packages copying /build/reproducible-path/pyfastx-2.1.0/.pybuild/cpython3_3.11/build/pyfastxcli.py -> /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.11/dist-packages byte-compiling /build/reproducible-path/pyfastx-2.1.0/debian/tmp/usr/lib/python3.11/dist-packages/pyfastxcli.py to pyfastxcli.cpython-311.pyc running install_egg_info running 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 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-2.1.0/debian/tmp/usr/lib/python3.11/dist-packages/pyfastx-2.1.0.egg-info Skipping SOURCES.txt running install_scripts Installing pyfastx script to /build/reproducible-path/pyfastx-2.1.0/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-2.1.0' # 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-2.1.0' dh_installchangelogs -O--buildsystem=pybuild dh_installexamples -O--buildsystem=pybuild debian/rules execute_after_dh_installexamples make[1]: Entering directory '/build/reproducible-path/pyfastx-2.1.0' # 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-2.1.0' dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_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 dpkg-gencontrol: warning: package python3-pyfastx: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: Depends field of package pyfastx: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package python3-pyfastx: substitution variable ${python3:Depends} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pyfastx' in '../python3-pyfastx_2.1.0-1_arm64.deb'. dpkg-deb: building package 'pyfastx' in '../pyfastx_2.1.0-1_arm64.deb'. dpkg-deb: building package 'python3-pyfastx-dbgsym' in '../python3-pyfastx-dbgsym_2.1.0-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../pyfastx_2.1.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../pyfastx_2.1.0-1_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/871152 and its subdirectories I: Current time: Wed Jun 11 16:24:21 -12 2025 I: pbuilder-time-stamp: 1749702261 Thu May 9 22:01:24 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink02-arm64.debian.net. Thu May 9 22:01:24 UTC 2024 I: Preparing to do remote build '2' on codethink02-arm64.debian.net. Thu May 9 22:03:08 UTC 2024 I: Deleting $TMPDIR on codethink02-arm64.debian.net. Thu May 9 22:03:08 UTC 2024 I: pyfastx_2.1.0-1_arm64.changes: Format: 1.8 Date: Sun, 17 Mar 2024 10:03:12 +0100 Source: pyfastx Binary: pyfastx python3-pyfastx python3-pyfastx-dbgsym Architecture: arm64 Version: 2.1.0-1 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 (2.1.0-1) unstable; urgency=medium . * New upstream version Checksums-Sha1: c3c31cc9276a50b2f665b8293f6f26f599c8e8ff 6937 pyfastx_2.1.0-1_arm64.buildinfo 4e6e34dbfc6b58846c6d864061ec30624ebd1f53 127420 pyfastx_2.1.0-1_arm64.deb eaf8b2c390ed15a5f7b37b914172793df578119b 243360 python3-pyfastx-dbgsym_2.1.0-1_arm64.deb 356b9bbcc65cbc3c2c9e8faab29cfe21743c26a2 63800 python3-pyfastx_2.1.0-1_arm64.deb Checksums-Sha256: f1d7f99b230ef7e53d2f983d4b3a0ca922e87b93d922f8302097f5e0c4adcede 6937 pyfastx_2.1.0-1_arm64.buildinfo c3abdc91011887d2e35c484a885c75220263af546e6850b592455358bcde74cf 127420 pyfastx_2.1.0-1_arm64.deb 2568a127e8105024b2d2ef40852e4c6ce96a450cae22810beb811041f0791b53 243360 python3-pyfastx-dbgsym_2.1.0-1_arm64.deb 1d1546857b2bfe7696619626d053cb8819c126a30d93f08d71c225cf417b74c9 63800 python3-pyfastx_2.1.0-1_arm64.deb Files: 8b34381065f075b1f7a45a76ad119545 6937 science optional pyfastx_2.1.0-1_arm64.buildinfo 7b0d3a679c243c3b1ec264b9ddbf206d 127420 science optional pyfastx_2.1.0-1_arm64.deb 662a0494fb4fac1a6339b447e6830c8a 243360 debug optional python3-pyfastx-dbgsym_2.1.0-1_arm64.deb e7918f1f118fa707424ce5c6fcdc40df 63800 python optional python3-pyfastx_2.1.0-1_arm64.deb Thu May 9 22:03:10 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_1-19528.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.h51YUChy/pyfastx_2.1.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.h51YUChy/pyfastx_2.1.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.h51YUChy/pyfastx_2.1.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.h51YUChy/b1/pyfastx_2.1.0-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.h51YUChy/b2/pyfastx_2.1.0-1_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 abc.DotChangesFile ## main (total time: 0.384s) 0.384s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.021s) 0.021s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 747ms CPU time consumed: 748ms Thu May 9 22:03:11 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Thu May 9 22:03:11 UTC 2024 I: pyfastx from unstable built successfully and reproducibly on arm64. Thu May 9 22:03:12 UTC 2024 I: Submitting .buildinfo files to external archives: Thu May 9 22:03:12 UTC 2024 I: Submitting 8.0K b1/pyfastx_2.1.0-1_arm64.buildinfo.asc Thu May 9 22:03:13 UTC 2024 I: Submitting 8.0K b2/pyfastx_2.1.0-1_arm64.buildinfo.asc Thu May 9 22:03:14 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu May 9 22:03:14 UTC 2024 I: Done submitting .buildinfo files. Thu May 9 22:03:14 UTC 2024 I: Removing signed pyfastx_2.1.0-1_arm64.buildinfo.asc files: removed './b1/pyfastx_2.1.0-1_arm64.buildinfo.asc' removed './b2/pyfastx_2.1.0-1_arm64.buildinfo.asc'