Thu Apr 18 20:09:51 UTC 2024 I: starting to build htseq/trixie/arm64 on jenkins on '2024-04-18 20:09' Thu Apr 18 20:09:51 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_15/38412/console.log Thu Apr 18 20:09:51 UTC 2024 I: Downloading source for trixie/htseq=2.0.5-1 --2024-04-18 20:09:51-- http://deb.debian.org/debian/pool/main/h/htseq/htseq_2.0.5-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2164 (2.1K) [text/prs.lines.tag] Saving to: ‘htseq_2.0.5-1.dsc’ 0K .. 100% 274M=0s 2024-04-18 20:09:51 (274 MB/s) - ‘htseq_2.0.5-1.dsc’ saved [2164/2164] Thu Apr 18 20:09:52 UTC 2024 I: htseq_2.0.5-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: htseq Binary: python3-htseq Architecture: any Version: 2.0.5-1 Maintainer: Debian Med Packaging Team Uploaders: Diane Trout , Andreas Tille Homepage: https://www-huber.embl.de/users/anders/HTSeq/doc/overview.html Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/htseq Vcs-Git: https://salsa.debian.org/med-team/htseq.git Testsuite: autopkgtest-pkg-python Build-Depends: 2to3, debhelper-compat (= 13), dh-sequence-python3, python3-debian, python3-setuptools, python3-all-dev, python3-numpy, python3-matplotlib, python3-pysam, swig, cython3 Package-List: python3-htseq deb python optional arch=any Checksums-Sha1: d2772fd4ec94c758100796793cf7ae7361a935e8 36799405 htseq_2.0.5.orig.tar.gz ec9cb6141696c7602c4d20915188f9e706d0e87f 11204 htseq_2.0.5-1.debian.tar.xz Checksums-Sha256: 2519675246dd1639115a76c9aacf19ab5bc5bed2f3598bf89cd97be5c0d066b3 36799405 htseq_2.0.5.orig.tar.gz 83464f266276b1ce8578ae22e2978db5b20198058f164ce2a592bb1b114b8cc9 11204 htseq_2.0.5-1.debian.tar.xz Files: ce61940ea41f8d6aa90ae37e1b7a78ae 36799405 htseq_2.0.5.orig.tar.gz 4f17c6e1867cf33dd9e88d2f6d50024a 11204 htseq_2.0.5-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmWg1VkRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGW4Q/+ID77A8uEqu9tmhbunSoIOyoal0inIGeE lLnTOKlqbAp9tbSzUT+ScBuK3OGodU0Hz/nt11rd2rdYKr/a2sl9kfxs6gfl+EFg JaFG9j1KvRHNvb4aT/E6zyWmfk4/aagwyVJQOBT4NU/au/pgMWK7JawkIYKb/YG8 jq/SjpmyBzgz8f8X11ZlXOM3iL96nY9z9d0BFtZEA5ILyGCZg4pYK+vfoASykExo VnQ3JKvIOvMljpLp+lDZC4fAWi4IWPtd1LEtBEmvjSavEDIEyXE/DrrYAmd29T0a tC6T+3BM7aNVQTZiB9WOFjdPU0FXlLXrB6IrjOs3M4PkeDnC7PmKVDFQSGbSd690 brpxN06aRRxhZKUaYoKZAvF1S65reyxPT7HEjIGqF2SwZieRUV89Gmg7UOGutKwB DH9uHsDjNrM4f7MwDnsf2jhB7lB3w1GGvW0UpEW5YV07R9hkzvIu7FhSGFIlfJt2 ZBXsj4c64AfqZQ4zy3NZNQqin0E+UnJKxBLJRYlKJdHWbCJWqXvLQ8MdXNrfo35K 9CLKi8VMWsgYUmdEbJIRe9HkNjAsF9mWCf04vgx84Hv1dC6PMaKvehqwN6WrxFl/ 5E6dEm++kUH7EF0/UKcKPEYq//Lu2lgAWWJ2J2gDkgJBg5kcG7yWS7/3u5ofqKGf 1kHkG40TkZ8= =zvvM -----END PGP SIGNATURE----- Thu Apr 18 20:09:52 UTC 2024 I: Checking whether the package is not for us Thu Apr 18 20:09:52 UTC 2024 I: Starting 1st build on remote node codethink01-arm64.debian.net. Thu Apr 18 20:09:52 UTC 2024 I: Preparing to do remote build '1' on codethink01-arm64.debian.net. Thu Apr 18 20:15:14 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build I: Current time: Wed May 21 14:32:56 -12 2025 I: pbuilder-time-stamp: 1747881176 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 [htseq_2.0.5-1.dsc] I: copying [./htseq_2.0.5.orig.tar.gz] I: copying [./htseq_2.0.5-1.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Jan 12 05:59:53 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./htseq_2.0.5-1.dsc: no acceptable signature found dpkg-source: info: extracting htseq in htseq-2.0.5 dpkg-source: info: unpacking htseq_2.0.5.orig.tar.gz dpkg-source: info: unpacking htseq_2.0.5-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2517064/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='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' 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='2517064' 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.ruq5zLzI/pbuilderrc_H3vN --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ruq5zLzI/b1 --logfile b1/build.log htseq_2.0.5-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/sbin/chroot' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink01-arm64 6.1.0-20-cloud-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 20 17:46 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2517064/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: 2to3, debhelper-compat (= 13), dh-sequence-python3, python3-debian, python3-setuptools, python3-all-dev, python3-numpy, python3-matplotlib, python3-pysam, swig, cython3 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19930 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 2to3; however: Package 2to3 is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-debian; however: Package python3-debian is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools 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-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam; however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on swig; however: Package swig is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 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: 2to3{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-lyx{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libcurl3-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhts3{a} libhtscodecs2{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libopenjp2-7{a} libpipeline1{a} libpng16-16{a} libpsl5{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.12{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1{a} libsub-override-perl{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-appdirs{a} python3-attr{a} python3-brotli{a} python3-chardet{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-debian{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-fonttools{a} python3-fs{a} python3-kiwisolver{a} python3-lib2to3{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-mpmath{a} python3-numpy{a} python3-packaging{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pyparsing{a} python3-pysam{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-sympy{a} python3-tk{a} python3-tz{a} python3-ufolib2{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} swig{a} tk8.6-blt2.5{a} tzdata{a} unicode-data{a} x11-common{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl isympy-common javascript-common libarchive-cpio-perl libglib2.0-data libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix python3-apt python3-bs4 python3-cssselect python3-html5lib python3-olefile shared-mime-info wget xdg-user-dirs zstd 0 packages upgraded, 158 newly installed, 0 to remove and 0 not upgraded. Need to get 125 MB of archives. After unpacking 584 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libpython3.11-minimal arm64 3.11.8-1 [811 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.5.0-2+b2 [85.8 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 python3.11-minimal arm64 3.11.8-1 [1848 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.11.6-1 [26.2 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 tzdata all 2024a-1 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-3 [69.1 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 libreadline8 arm64 8.2-3+b1 [157 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libpython3.11-stdlib arm64 3.11.8-1 [1781 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 python3.11 arm64 3.11.8-1 [597 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.11.6-1 [9224 B] Get: 13 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.11.6-1 [26.2 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 libpython3.12-minimal arm64 3.12.2-1 [800 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3.12-minimal arm64 3.12.2-1 [1983 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-2+b1 [314 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 libmagic1 arm64 1:5.45-2+b1 [100 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-2+b1 [43.2 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-3 [1127 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.39.3-6 [90.0 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.12.0-3 [1385 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 python3-lib2to3 all 3.11.5-1 [77.5 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 2to3 all 3.11.6-1 [10.2 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.71-3 [332 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.21-14 [496 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libtcl8.6 arm64 8.6.14+dfsg-1 [975 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b3 [295 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libpng16-16 arm64 1.6.43-1 [271 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.2+dfsg-1+b1 [408 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-1.1 [317 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-1.1 [385 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.9-1 [19.7 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libbsd0 arm64 0.12.2-1 [129 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3 [25.4 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.15-1 [143 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1 [772 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libxrender1 arm64 1:0.9.10-1.1 [32.0 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libxft2 arm64 2.3.6-1+b1 [51.0 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b1 [51.7 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+23 [252 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libxss1 arm64 1:1.2.3-1 [17.8 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 libtk8.6 arm64 8.6.14-1 [732 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-7 [533 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 blt arm64 2.5.3+dfsg-7 [6024 B] Get: 55 http://deb.debian.org/debian trixie/main arm64 cython3 arm64 3.0.8-1 [5631 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 63 http://deb.debian.org/debian trixie/main arm64 libelf1 arm64 0.190-1+b1 [175 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1 [101 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b2 [624 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.15.3 [901 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 python3-distutils all 3.11.5-1 [131 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 68.1.2-2 [468 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20240401 [107 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 fonts-lyx all 2.4.0~RC3-1 [189 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.0-3 [91.7 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-4+b1 [20.2 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-4+b1 [55.5 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libldap-2.5-0 arm64 2.5.13+dfsg-5+b3 [172 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.59.0-1 [70.2 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libpsl5 arm64 0.21.2-1+b1 [59.0 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libssh2-1 arm64 1.11.0-4 [206 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libcurl3-gnutls arm64 8.5.0-2 [394 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.20-1 [41.5 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.5.0-2+b2 [135 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 libfribidi0 arm64 1.0.13-3+b1 [71.3 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14-20240201-3 [360 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libglib2.0-0 arm64 2.78.4-1 [1361 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 libgraphite2-3 arm64 1.3.14-2 [69.2 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libharfbuzz0b arm64 8.3.0-2 [2178 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libhtscodecs2 arm64 1.6.0-1+b1 [71.6 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libhts3 arm64 1.19+ds-1 [412 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 libimagequant0 arm64 2.18.0-1 [34.3 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b1 [30.4 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-2+b2 [172 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libjs-sphinxdoc all 7.2.6-6 [150 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.0-3 [1757 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 liblbfgsb0 arm64 3.0+dfsg.4-1+b1 [25.0 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.14-2+b1 [144 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-4+b1 [142 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.0-2+b2 [176 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libpython3.11 arm64 3.11.8-1 [1844 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3+b1 [916 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libpython3.11-dev arm64 3.11.8-1 [4289 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.11.6-1 [9460 B] Get: 110 http://deb.debian.org/debian trixie/main arm64 libpython3.12-stdlib arm64 3.12.2-1 [1872 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libpython3.12 arm64 3.12.2-1 [1961 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 libpython3.12-dev arm64 3.12.2-1 [4639 kB] Get: 113 http://deb.debian.org/debian trixie/main arm64 libpython3-all-dev arm64 3.11.6-1 [1072 B] Get: 114 http://deb.debian.org/debian trixie/main arm64 libqhull-r8.0 arm64 2020.2-6+b1 [226 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 libraqm0 arm64 0.10.1-1+b1 [13.7 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.3.2-0.4 [106 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.3.2-0.4 [263 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.5.1+git230720-4 [307 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 libwebpdemux2 arm64 1.3.2-0.4 [107 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 libwebpmux3 arm64 1.3.2-0.4 [118 kB] Get: 121 http://deb.debian.org/debian trixie/main arm64 libxslt1.1 arm64 1.1.35-1 [231 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 123 http://deb.debian.org/debian trixie/main arm64 python3.12 arm64 3.12.2-1 [653 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.11.6-1 [1060 B] Get: 125 http://deb.debian.org/debian trixie/main arm64 python3.11-dev arm64 3.11.8-1 [509 kB] Get: 126 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.11.6-1 [26.1 kB] Get: 127 http://deb.debian.org/debian trixie/main arm64 python3.12-dev arm64 3.12.2-1 [507 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 python3-all-dev arm64 3.11.6-1 [1076 B] Get: 129 http://deb.debian.org/debian trixie/main arm64 python3-appdirs all 1.4.4-4 [12.5 kB] Get: 130 http://deb.debian.org/debian trixie/main arm64 python3-attr all 23.2.0-2 [65.5 kB] Get: 131 http://deb.debian.org/debian trixie/main arm64 python3-brotli arm64 1.1.0-2+b3 [316 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 133 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:1.24.2-2 [4122 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 python3-contourpy arm64 1.0.7-3 [247 kB] Get: 135 http://deb.debian.org/debian trixie/main arm64 python3-cycler all 0.12.1-1 [9496 B] Get: 136 http://deb.debian.org/debian trixie/main arm64 python3-six all 1.16.0-6 [16.3 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 python3-dateutil all 2.9.0-2 [79.4 kB] Get: 138 http://deb.debian.org/debian trixie/main arm64 python3-debian all 0.1.49 [115 kB] Get: 139 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 140 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.11.4-6 [17.5 MB] Get: 141 http://deb.debian.org/debian trixie/main arm64 python3-ufolib2 all 0.16.0+dfsg1-1 [32.9 kB] Get: 142 http://deb.debian.org/debian trixie/main arm64 python3-mpmath all 1.3.0-1 [419 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 python3-sympy all 1.12-7 [3869 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 python3-tz all 2024.1-2 [30.9 kB] Get: 145 http://deb.debian.org/debian trixie/main arm64 python3-fs all 2.4.16-4 [95.4 kB] Get: 146 http://deb.debian.org/debian trixie/main arm64 python3-lxml arm64 5.1.0-1 [1810 kB] Get: 147 http://deb.debian.org/debian trixie/main arm64 python3-lz4 arm64 4.0.2+dfsg-1+b3 [26.6 kB] Get: 148 http://deb.debian.org/debian trixie/main arm64 unicode-data all 15.1.0-1 [8547 kB] Get: 149 http://deb.debian.org/debian trixie/main arm64 python3-fonttools arm64 4.46.0-1 [1510 kB] Get: 150 http://deb.debian.org/debian trixie/main arm64 python3-kiwisolver arm64 1.4.4-3 [74.6 kB] Get: 151 http://deb.debian.org/debian trixie/main arm64 python3-pil arm64 10.2.0-1 [504 kB] Get: 152 http://deb.debian.org/debian trixie/main arm64 python3-tk arm64 3.11.5-1 [107 kB] Get: 153 http://deb.debian.org/debian trixie/main arm64 python3-pil.imagetk arm64 10.2.0-1 [78.0 kB] Get: 154 http://deb.debian.org/debian trixie/main arm64 python3-pyparsing all 3.1.1-1 [145 kB] Get: 155 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 24.0-1 [45.5 kB] Get: 156 http://deb.debian.org/debian trixie/main arm64 python3-matplotlib arm64 3.6.3-1+b2 [7970 kB] Get: 157 http://deb.debian.org/debian trixie/main arm64 python3-pysam arm64 0.22.0+ds-1+b1 [3765 kB] Get: 158 http://deb.debian.org/debian trixie/main arm64 swig arm64 4.2.1-1 [1350 kB] Fetched 125 MB in 1s (90.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19930 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.8-1_arm64.deb ... Unpacking libpython3.11-minimal:arm64 (3.11.8-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.5.0-2+b2_arm64.deb ... Unpacking libexpat1:arm64 (2.5.0-2+b2) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.8-1_arm64.deb ... Unpacking python3.11-minimal (3.11.8-1) ... Setting up libpython3.11-minimal:arm64 (3.11.8-1) ... Setting up libexpat1:arm64 (2.5.0-2+b2) ... Setting up python3.11-minimal (3.11.8-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20247 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.6-1_arm64.deb ... Unpacking python3-minimal (3.11.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-1_all.deb ... Unpacking tzdata (2024a-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-3_all.deb ... Unpacking readline-common (8.2-3) ... Selecting previously unselected package libreadline8:arm64. Preparing to unpack .../5-libreadline8_8.2-3+b1_arm64.deb ... Unpacking libreadline8:arm64 (8.2-3+b1) ... Selecting previously unselected package libpython3.11-stdlib:arm64. Preparing to unpack .../6-libpython3.11-stdlib_3.11.8-1_arm64.deb ... Unpacking libpython3.11-stdlib:arm64 (3.11.8-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.8-1_arm64.deb ... Unpacking python3.11 (3.11.8-1) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../8-libpython3-stdlib_3.11.6-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.11.6-1) ... Setting up python3-minimal (3.11.6-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21235 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.6-1_arm64.deb ... Unpacking python3 (3.11.6-1) ... Selecting previously unselected package libpython3.12-minimal:arm64. Preparing to unpack .../001-libpython3.12-minimal_3.12.2-1_arm64.deb ... Unpacking libpython3.12-minimal:arm64 (3.12.2-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../002-python3.12-minimal_3.12.2-1_arm64.deb ... Unpacking python3.12-minimal (3.12.2-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.45-2+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-2+b1) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../005-libmagic1_1%3a5.45-2+b1_arm64.deb ... Unpacking libmagic1:arm64 (1:5.45-2+b1) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.45-2+b1_arm64.deb ... Unpacking file (1:5.45-2+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-14+b1_arm64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../008-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.23.0-3_arm64.deb ... Unpacking groff-base (1.23.0-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.39.3-6_arm64.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../011-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.12.0-3_arm64.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../013-python3-lib2to3_3.11.5-1_all.deb ... Unpacking python3-lib2to3 (3.11.5-1) ... Selecting previously unselected package 2to3. Preparing to unpack .../014-2to3_3.11.6-1_all.deb ... Unpacking 2to3 (3.11.6-1) ... Selecting previously unselected package m4. Preparing to unpack .../015-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../016-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../017-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../018-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../019-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libtcl8.6:arm64. Preparing to unpack .../020-libtcl8.6_8.6.14+dfsg-1_arm64.deb ... Unpacking libtcl8.6:arm64 (8.6.14+dfsg-1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../021-libbrotli1_1.1.0-2+b3_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b3) ... Selecting previously unselected package libpng16-16:arm64. Preparing to unpack .../022-libpng16-16_1.6.43-1_arm64.deb ... Unpacking libpng16-16:arm64 (1.6.43-1) ... Selecting previously unselected package libfreetype6:arm64. Preparing to unpack .../023-libfreetype6_2.13.2+dfsg-1+b1_arm64.deb ... Unpacking libfreetype6:arm64 (2.13.2+dfsg-1+b1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../024-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../025-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../026-fontconfig-config_2.15.0-1.1_arm64.deb ... Unpacking fontconfig-config (2.15.0-1.1) ... Selecting previously unselected package libfontconfig1:arm64. Preparing to unpack .../027-libfontconfig1_2.15.0-1.1_arm64.deb ... Unpacking libfontconfig1:arm64 (2.15.0-1.1) ... Selecting previously unselected package libxau6:arm64. Preparing to unpack .../028-libxau6_1%3a1.0.9-1_arm64.deb ... Unpacking libxau6:arm64 (1:1.0.9-1) ... Selecting previously unselected package libbsd0:arm64. Preparing to unpack .../029-libbsd0_0.12.2-1_arm64.deb ... Unpacking libbsd0:arm64 (0.12.2-1) ... Selecting previously unselected package libxdmcp6:arm64. Preparing to unpack .../030-libxdmcp6_1%3a1.1.2-3_arm64.deb ... Unpacking libxdmcp6:arm64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:arm64. Preparing to unpack .../031-libxcb1_1.15-1_arm64.deb ... Unpacking libxcb1:arm64 (1.15-1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../032-libx11-data_2%3a1.8.7-1_all.deb ... Unpacking libx11-data (2:1.8.7-1) ... Selecting previously unselected package libx11-6:arm64. Preparing to unpack .../033-libx11-6_2%3a1.8.7-1_arm64.deb ... Unpacking libx11-6:arm64 (2:1.8.7-1) ... Selecting previously unselected package libxrender1:arm64. Preparing to unpack .../034-libxrender1_1%3a0.9.10-1.1_arm64.deb ... Unpacking libxrender1:arm64 (1:0.9.10-1.1) ... Selecting previously unselected package libxft2:arm64. Preparing to unpack .../035-libxft2_2.3.6-1+b1_arm64.deb ... Unpacking libxft2:arm64 (2.3.6-1+b1) ... Selecting previously unselected package libxext6:arm64. Preparing to unpack .../036-libxext6_2%3a1.3.4-1+b1_arm64.deb ... Unpacking libxext6:arm64 (2:1.3.4-1+b1) ... Selecting previously unselected package x11-common. Preparing to unpack .../037-x11-common_1%3a7.7+23_all.deb ... Unpacking x11-common (1:7.7+23) ... Selecting previously unselected package libxss1:arm64. Preparing to unpack .../038-libxss1_1%3a1.2.3-1_arm64.deb ... Unpacking libxss1:arm64 (1:1.2.3-1) ... Selecting previously unselected package libtk8.6:arm64. Preparing to unpack .../039-libtk8.6_8.6.14-1_arm64.deb ... Unpacking libtk8.6:arm64 (8.6.14-1) ... Selecting previously unselected package tk8.6-blt2.5. Preparing to unpack .../040-tk8.6-blt2.5_2.5.3+dfsg-7_arm64.deb ... Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7) ... Selecting previously unselected package blt. Preparing to unpack .../041-blt_2.5.3+dfsg-7_arm64.deb ... Unpacking blt (2.5.3+dfsg-7) ... Selecting previously unselected package cython3. Preparing to unpack .../042-cython3_3.0.8-1_arm64.deb ... Unpacking cython3 (3.0.8-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../043-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../044-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. 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Unpacking python3-matplotlib (3.6.3-1+b2) ... Selecting previously unselected package python3-pysam. Preparing to unpack .../144-python3-pysam_0.22.0+ds-1+b1_arm64.deb ... Unpacking python3-pysam (0.22.0+ds-1+b1) ... Selecting previously unselected package swig. Preparing to unpack .../145-swig_4.2.1-1_arm64.deb ... Unpacking swig (4.2.1-1) ... Setting up libhtscodecs2:arm64 (1.6.0-1+b1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up libgraphite2-3:arm64 (1.3.14-2) ... Setting up liblcms2-2:arm64 (2.14-2+b1) ... Setting up libsharpyuv0:arm64 (1.3.2-0.4) ... Setting up libxau6:arm64 (1:1.0.9-1) ... Setting up libpsl5:arm64 (0.21.2-1+b1) ... Setting up swig (4.2.1-1) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up liblerc4:arm64 (4.0.0+ds-4+b1) ... Setting up bsdextrautils (2.39.3-6) ... Setting up libmagic-mgc (1:5.45-2+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:arm64 (2.78.4-1) ... No schema files found: doing nothing. Setting up fonts-lyx (2.4.0~RC3-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:arm64 (1.1.0-2+b3) ... Setting up libpython3.12-minimal:arm64 (3.12.2-1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libnghttp2-14:arm64 (1.59.0-1) ... Setting up libmagic1:arm64 (1:5.45-2+b1) ... Setting up libdeflate0:arm64 (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libqhull-r8.0:arm64 (2020.2-6+b1) ... Setting up file (1:5.45-2+b1) ... Setting up libjbig0:arm64 (2.1-6.1+b1) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-4+b1) ... Setting up tzdata (2024a-1) ... Current default time zone: 'Etc/UTC' Local time is now: Thu May 22 02:33:29 UTC 2025. Universal Time is now: Thu May 22 02:33:29 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:arm64 (3.12.0-3) ... 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 (2.5.0-2+b2) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-2+b2) ... Setting up libx11-data (2:1.8.7-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libfribidi0:arm64 (1.0.13-3+b1) ... Setting up libimagequant0:arm64 (2.18.0-1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16:arm64 (1.6.43-1) ... Setting up libtcl8.6:arm64 (8.6.14+dfsg-1) ... Setting up autopoint (0.21-14) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg1-4+b1) ... Setting up libgfortran5:arm64 (14-20240201-3) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:arm64 (1.3.2-0.4) ... 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Setting up libxdmcp6:arm64 (1:1.1.2-3) ... Setting up liblapack3:arm64 (3.12.0-3) ... 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 libxcb1:arm64 (1.15-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libwebpdemux2:arm64 (1.3.2-0.4) ... Setting up libreadline8:arm64 (8.2-3+b1) ... Setting up libldap-2.5-0:arm64 (2.5.13+dfsg-5+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:arm64 (2.13.2+dfsg-1+b1) ... Setting up libjs-sphinxdoc (7.2.6-6) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up libxslt1.1:arm64 (1.1.35-1) ... Setting up libx11-6:arm64 (2:1.8.7-1) ... Setting up libharfbuzz0b:arm64 (8.3.0-2) ... Setting up libfontconfig1:arm64 (2.15.0-1.1) ... Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1+b1) ... Setting up libpython3.12-stdlib:arm64 (3.12.2-1) ... Setting up libxrender1:arm64 (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:arm64 (3.11.8-1) ... Setting up python3.12 (3.12.2-1) ... Setting up libxext6:arm64 (2:1.3.4-1+b1) ... Setting up libcurl3-gnutls:arm64 (8.5.0-2) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libraqm0:arm64 (0.10.1-1+b1) ... Setting up libxss1:arm64 (1:1.2.3-1) ... Setting up libpython3.12:arm64 (3.12.2-1) ... Setting up libpython3-stdlib:arm64 (3.11.6-1) ... Setting up python3.11 (3.11.8-1) ... Setting up libxft2:arm64 (2.3.6-1+b1) ... Setting up libhts3:arm64 (1.19+ds-1) ... Setting up libpython3.11:arm64 (3.11.8-1) ... Setting up libtk8.6:arm64 (8.6.14-1) ... Setting up debhelper (13.15.3) ... Setting up python3 (3.11.6-1) ... Setting up libpython3.12-dev:arm64 (3.12.2-1) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-6) ... Setting up python3-pil:arm64 (10.2.0-1) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.0-1) ... Setting up python3-pyparsing (3.1.1-1) ... Setting up libpython3.11-dev:arm64 (3.11.8-1) ... Setting up python3-brotli (1.1.0-2+b3) ... Setting up python3-cycler (0.12.1-1) ... Setting up python3-kiwisolver (1.4.4-3) ... Setting up python3.12-dev (3.12.2-1) ... Setting up cython3 (3.0.8-1) ... Setting up python3-lxml:arm64 (5.1.0-1) ... Setting up python3-dateutil (2.9.0-2) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python3-lib2to3 (3.11.5-1) ... Setting up python3-appdirs (1.4.4-4) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.11.5-1) ... python3.12: can't get files for byte-compilation Setting up python3-sympy (1.12-7) ... Setting up python3-attr (23.2.0-2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-7) ... Setting up python3-pysam (0.22.0+ds-1+b1) ... Setting up libpython3-dev:arm64 (3.11.6-1) ... Setting up python3-setuptools (68.1.2-2) ... Setting up python3-lz4 (4.0.2+dfsg-1+b3) ... Setting up python3.11-dev (3.11.8-1) ... Setting up blt (2.5.3+dfsg-7) ... Setting up python3-all (3.11.6-1) ... Setting up python3-tk:arm64 (3.11.5-1) ... Setting up 2to3 (3.11.6-1) ... Setting up python3-fs (2.4.16-4) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-pil.imagetk:arm64 (10.2.0-1) ... Setting up libpython3-all-dev:arm64 (3.11.6-1) ... Setting up python3-debian (0.1.49) ... Setting up python3-dev (3.11.6-1) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up python3-contourpy (1.0.7-3) ... Setting up dh-python (6.20240401) ... Setting up python3-all-dev (3.11.6-1) ... Setting up python3-scipy (1.11.4-6) ... Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... Setting up python3-fonttools (4.46.0-1) ... Setting up python3-matplotlib (3.6.3-1+b2) ... Processing triggers for libc-bin (2.37-15) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/htseq-2.0.5/ && 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 > ../htseq_2.0.5-1_source.changes dpkg-buildpackage: info: source package htseq dpkg-buildpackage: info: source version 2.0.5-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/htseq-2.0.5' dh_auto_clean I: pybuild base:311: python3.12 setup.py clean /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. running clean removing '/build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/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 /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. running clean removing '/build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/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 # setup.py creates some symlinks in clean target # remove these links to keep source tree clean for link in 'src' 'HTSeq' 'doc' 'scripts' 'test' ; do \ if [ -L ${link} ] ; then rm ${link} ; fi \ done make[1]: Leaving directory '/build/reproducible-path/htseq-2.0.5' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py config /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. running config I: pybuild base:311: python3.11 setup.py config /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3.12 setup.py build /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. running build running build_py running preprocess Cython version 3.0.8 Deprecated command line option: -py3. Ignored, this option is no longer supported. creating /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq copying HTSeq/__init__.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq copying HTSeq/_HTSeq_internal.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq copying HTSeq/StepVector.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq copying HTSeq/StretchVector.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq copying HTSeq/_version.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq creating /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts copying HTSeq/scripts/__init__.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts copying HTSeq/scripts/qa.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts copying HTSeq/scripts/count.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts copying HTSeq/scripts/count_with_barcodes.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts copying HTSeq/scripts/utils.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts copying HTSeq/utils.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq copying HTSeq/features.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq creating /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/__init__.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/count_features_per_file.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/reads_io_processor.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/reads_stats.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features running build_ext building 'HTSeq._HTSeq' extension creating build creating build/temp.linux-aarch64-cpython-312 creating build/temp.linux-aarch64-cpython-312/src aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.12 -c src/_HTSeq.c -o build/temp.linux-aarch64-cpython-312/src/_HTSeq.o -w aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/_HTSeq.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_HTSeq.cpython-312-aarch64-linux-gnu.so building 'HTSeq._StepVector' extension aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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 src/StepVector_wrap.cxx -o build/temp.linux-aarch64-cpython-312/src/StepVector_wrap.o -w aarch64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/StepVector_wrap.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_StepVector.cpython-312-aarch64-linux-gnu.so running build_scripts creating build/scripts-3.12 copying and adjusting scripts/htseq-qa -> build/scripts-3.12 copying and adjusting scripts/htseq-count -> build/scripts-3.12 copying and adjusting scripts/htseq-count-barcodes -> build/scripts-3.12 changing mode of build/scripts-3.12/htseq-qa from 644 to 755 changing mode of build/scripts-3.12/htseq-count from 644 to 755 changing mode of build/scripts-3.12/htseq-count-barcodes from 644 to 755 I: pybuild base:311: /usr/bin/python3 setup.py build /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. running build running build_py running preprocess Cython version 3.0.8 Deprecated command line option: -py3. Ignored, this option is no longer supported. creating /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq copying HTSeq/__init__.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq copying HTSeq/_HTSeq_internal.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq copying HTSeq/StepVector.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq copying HTSeq/StretchVector.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq copying HTSeq/_version.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq creating /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts copying HTSeq/scripts/__init__.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts copying HTSeq/scripts/qa.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts copying HTSeq/scripts/count.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts copying HTSeq/scripts/count_with_barcodes.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts copying HTSeq/scripts/utils.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts copying HTSeq/utils.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq copying HTSeq/features.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq creating /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/__init__.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/count_features_per_file.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/reads_io_processor.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features copying HTSeq/scripts/count_features/reads_stats.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features running build_ext building 'HTSeq._HTSeq' extension creating build/temp.linux-aarch64-cpython-311 creating build/temp.linux-aarch64-cpython-311/src aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c src/_HTSeq.c -o build/temp.linux-aarch64-cpython-311/src/_HTSeq.o -w aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/_HTSeq.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_HTSeq.cpython-311-aarch64-linux-gnu.so building 'HTSeq._StepVector' extension aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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 src/StepVector_wrap.cxx -o build/temp.linux-aarch64-cpython-311/src/StepVector_wrap.o -w aarch64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/StepVector_wrap.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_StepVector.cpython-311-aarch64-linux-gnu.so running build_scripts creating build/scripts-3.11 copying and adjusting scripts/htseq-qa -> build/scripts-3.11 copying and adjusting scripts/htseq-count -> build/scripts-3.11 copying and adjusting scripts/htseq-count-barcodes -> build/scripts-3.11 changing mode of build/scripts-3.11/htseq-qa from 644 to 755 changing mode of build/scripts-3.11/htseq-count from 644 to 755 changing mode of build/scripts-3.11/htseq-count-barcodes from 644 to 755 dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build; python3.12 -m unittest discover -v /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__init__.py:583: SyntaxWarning: invalid escape sequence '\=' _re_vcf_meta_comment = re.compile("^##([a-zA-Z]+)\=(.*)$") /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/features.py:14: SyntaxWarning: invalid escape sequence '\s' _re_attr_main = re.compile("\s*([^\s\=]+)[\s=]+(.*)") /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/features.py:15: SyntaxWarning: invalid escape sequence '\s' _re_attr_empty = re.compile("^\s*$") /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/features.py:16: SyntaxWarning: invalid escape sequence '\s' _re_gff_meta_comment = re.compile("##\s*(\S+)\s+(\S*)") ---------------------------------------------------------------------- Ran 0 tests in 0.000s NO TESTS RAN I: pybuild base:311: cd /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build; python3.11 -m unittest discover -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/python3-htseq/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3.12 setup.py install --root /build/reproducible-path/htseq-2.0.5/debian/python3-htseq /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. 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 preprocess Cython version 3.0.8 Deprecated command line option: -py3. Ignored, this option is no longer supported. copying HTSeq/StepVector.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq copying HTSeq/_version.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' extension aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.12 -c src/_HTSeq.c -o build/temp.linux-aarch64-cpython-312/src/_HTSeq.o -w aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/_HTSeq.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_HTSeq.cpython-312-aarch64-linux-gnu.so building 'HTSeq._StepVector' extension aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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 src/StepVector_wrap.cxx -o build/temp.linux-aarch64-cpython-312/src/StepVector_wrap.o -w aarch64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/StepVector_wrap.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_StepVector.cpython-312-aarch64-linux-gnu.so running build_scripts running install_lib creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12 creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_StepVector.cpython-312-aarch64-linux-gnu.so -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_HTSeq.cpython-312-aarch64-linux-gnu.so -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_version.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/StepVector.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__pycache__/features.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__pycache__/_version.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__pycache__/utils.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__pycache__/_HTSeq_internal.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__pycache__/StretchVector.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__pycache__/StepVector.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/features.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/utils.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/__pycache__ creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features/reads_stats.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features/reads_io_processor.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features/count_features_per_file.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_features/__init__.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/utils.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count_with_barcodes.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/count.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/qa.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/scripts/__init__.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/StretchVector.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/_HTSeq_internal.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.12_htseq/build/HTSeq/__init__.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/_version.py to _version.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/StepVector.py to StepVector.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/features.py to features.cpython-312.pyc /usr/lib/python3.12/dist-packages/HTSeq/features.py:14: SyntaxWarning: invalid escape sequence '\s' /usr/lib/python3.12/dist-packages/HTSeq/features.py:15: SyntaxWarning: invalid escape sequence '\s' /usr/lib/python3.12/dist-packages/HTSeq/features.py:16: SyntaxWarning: invalid escape sequence '\s' byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/utils.py to utils.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features/reads_stats.py to reads_stats.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features/reads_io_processor.py to reads_io_processor.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features/count_features_per_file.py to count_features_per_file.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_features/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/utils.py to utils.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count_with_barcodes.py to count_with_barcodes.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/count.py to count.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/qa.py to qa.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/scripts/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/StretchVector.py to StretchVector.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/_HTSeq_internal.py to _HTSeq_internal.cpython-312.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq/__init__.py to __init__.cpython-312.pyc /usr/lib/python3.12/dist-packages/HTSeq/__init__.py:583: SyntaxWarning: invalid escape sequence '\=' running install_egg_info running egg_info creating HTSeq.egg-info writing HTSeq.egg-info/PKG-INFO writing dependency_links to HTSeq.egg-info/dependency_links.txt writing requirements to HTSeq.egg-info/requires.txt writing top-level names to HTSeq.egg-info/top_level.txt writing manifest file 'HTSeq.egg-info/SOURCES.txt' reading manifest file 'HTSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'todo.txt' adding license file 'LICENSE' writing manifest file 'HTSeq.egg-info/SOURCES.txt' Copying HTSeq.egg-info to /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.12/dist-packages/HTSeq-2.0.5.egg-info Skipping SOURCES.txt running install_scripts creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin copying build/scripts-3.12/htseq-count-barcodes -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin copying build/scripts-3.12/htseq-count -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin copying build/scripts-3.12/htseq-qa -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin changing mode of /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin/htseq-count-barcodes to 755 changing mode of /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin/htseq-count to 755 changing mode of /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin/htseq-qa to 755 I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/htseq-2.0.5/debian/python3-htseq /bin/sh: 1: git: not found /usr/lib/python3/dist-packages/setuptools/__init__.py:84: _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`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) WARNING: The wheel package is not available. 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 preprocess Cython version 3.0.8 Deprecated command line option: -py3. Ignored, this option is no longer supported. copying HTSeq/StepVector.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq copying HTSeq/_version.py -> /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' extension aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c src/_HTSeq.c -o build/temp.linux-aarch64-cpython-311/src/_HTSeq.o -w aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/_HTSeq.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_HTSeq.cpython-311-aarch64-linux-gnu.so building 'HTSeq._StepVector' extension aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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 src/StepVector_wrap.cxx -o build/temp.linux-aarch64-cpython-311/src/StepVector_wrap.o -w aarch64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/htseq-2.0.5=. -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/src/StepVector_wrap.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_StepVector.cpython-311-aarch64-linux-gnu.so running build_scripts running install_lib creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11 creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_StepVector.cpython-311-aarch64-linux-gnu.so -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_HTSeq.cpython-311-aarch64-linux-gnu.so -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_version.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/StepVector.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__pycache__/features.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__pycache__/_version.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__pycache__/utils.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__pycache__/_HTSeq_internal.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__pycache__/StretchVector.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__pycache__/StepVector.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/features.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/utils.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/__pycache__ creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features creating /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features/__pycache__ copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features/reads_stats.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features/reads_io_processor.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features/count_features_per_file.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_features/__init__.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/utils.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count_with_barcodes.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/count.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/qa.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/scripts/__init__.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/StretchVector.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/_HTSeq_internal.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq copying /build/reproducible-path/htseq-2.0.5/.pybuild/cpython3_3.11_htseq/build/HTSeq/__init__.py -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/_version.py to _version.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/StepVector.py to StepVector.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/features.py to features.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/utils.py to utils.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features/reads_stats.py to reads_stats.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features/reads_io_processor.py to reads_io_processor.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features/count_features_per_file.py to count_features_per_file.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_features/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/utils.py to utils.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count_with_barcodes.py to count_with_barcodes.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/count.py to count.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/qa.py to qa.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/scripts/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/StretchVector.py to StretchVector.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/_HTSeq_internal.py to _HTSeq_internal.cpython-311.pyc byte-compiling /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq/__init__.py to __init__.cpython-311.pyc running install_egg_info running egg_info writing HTSeq.egg-info/PKG-INFO writing dependency_links to HTSeq.egg-info/dependency_links.txt writing requirements to HTSeq.egg-info/requires.txt writing top-level names to HTSeq.egg-info/top_level.txt reading manifest file 'HTSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'todo.txt' adding license file 'LICENSE' writing manifest file 'HTSeq.egg-info/SOURCES.txt' Copying HTSeq.egg-info to /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/lib/python3.11/dist-packages/HTSeq-2.0.5.egg-info Skipping SOURCES.txt running install_scripts copying build/scripts-3.11/htseq-count-barcodes -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin copying build/scripts-3.11/htseq-count -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin copying build/scripts-3.11/htseq-qa -> /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin changing mode of /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin/htseq-count-barcodes to 755 changing mode of /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin/htseq-count to 755 changing mode of /build/reproducible-path/htseq-2.0.5/debian/python3-htseq/usr/bin/htseq-qa to 755 dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild debian/rules override_dh_python3 make[1]: Entering directory '/build/reproducible-path/htseq-2.0.5' dh_python3 dh_numpy3 make[1]: Leaving directory '/build/reproducible-path/htseq-2.0.5' 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 dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-htseq' in '../python3-htseq_2.0.5-1_arm64.deb'. dpkg-deb: building package 'python3-htseq-dbgsym' in '../python3-htseq-dbgsym_2.0.5-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../htseq_2.0.5-1_arm64.buildinfo dpkg-genchanges --build=binary -O../htseq_2.0.5-1_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/2517064 and its subdirectories I: Current time: Wed May 21 14:38:04 -12 2025 I: pbuilder-time-stamp: 1747881484 Thu Apr 18 20:15:15 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Thu Apr 18 20:15:15 UTC 2024 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Thu Apr 18 20:24:50 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Thu Apr 18 20:24:51 UTC 2024 I: htseq_2.0.5-1_arm64.changes: Format: 1.8 Date: Fri, 12 Jan 2024 06:54:06 +0100 Source: htseq Binary: python3-htseq python3-htseq-dbgsym Architecture: arm64 Version: 2.0.5-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: python3-htseq - Python3 high-throughput genome sequencing read analysis utilities Closes: 1046620 Changes: htseq (2.0.5-1) unstable; urgency=medium . * New upstream version * Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update) * Ensure proper numpy ABI * Fix clean target Closes: #1046620 Checksums-Sha1: f23cc7f322c0878cfc48ea23241c9d70ed5a9128 9526 htseq_2.0.5-1_arm64.buildinfo 3ae7d0ee6a7f9ea842361c64d333e43367f3c68b 2868448 python3-htseq-dbgsym_2.0.5-1_arm64.deb 7ae4bf591a94a65f33ae3dc5117a8d4fce7b6d8d 426060 python3-htseq_2.0.5-1_arm64.deb Checksums-Sha256: b13a6be17deb7dd5a8b30f78fbe6b3427d5a073ccffae307b6111dedd96e6be9 9526 htseq_2.0.5-1_arm64.buildinfo 98abc3381ee1ef69f781efdb254dda6819138a5da651a3d516765c6ce2079e63 2868448 python3-htseq-dbgsym_2.0.5-1_arm64.deb 4f57f127812697225a2c2991408ec6054435577ae316fc3ed1ac5450582a80e0 426060 python3-htseq_2.0.5-1_arm64.deb Files: 2250517ee2341e07668fd822d5e5213d 9526 python optional htseq_2.0.5-1_arm64.buildinfo 9945d3741c5fa5a165b11466fafc1bf9 2868448 debug optional python3-htseq-dbgsym_2.0.5-1_arm64.deb 3708b890d252c4ecfcb641809382be84 426060 python optional python3-htseq_2.0.5-1_arm64.deb Thu Apr 18 20:24:52 UTC 2024 I: diffoscope 264 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_15-38412.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ruq5zLzI/htseq_2.0.5-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ruq5zLzI/htseq_2.0.5-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ruq5zLzI/htseq_2.0.5-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ruq5zLzI/b1/htseq_2.0.5-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ruq5zLzI/b2/htseq_2.0.5-1_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: 0.362s) 0.362s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.051s) 0.051s 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: 658ms CPU time consumed: 659ms Thu Apr 18 20:24:53 UTC 2024 I: diffoscope 264 found no differences in the changes files, and a .buildinfo file also exists. Thu Apr 18 20:24:53 UTC 2024 I: htseq from trixie built successfully and reproducibly on arm64. Thu Apr 18 20:24:54 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Apr 18 20:24:54 UTC 2024 I: Submitting 12K b1/htseq_2.0.5-1_arm64.buildinfo.asc Thu Apr 18 20:24:56 UTC 2024 I: Submitting 12K b2/htseq_2.0.5-1_arm64.buildinfo.asc Thu Apr 18 20:24:58 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Apr 18 20:24:58 UTC 2024 I: Done submitting .buildinfo files. Thu Apr 18 20:24:58 UTC 2024 I: Removing signed htseq_2.0.5-1_arm64.buildinfo.asc files: removed './b1/htseq_2.0.5-1_arm64.buildinfo.asc' removed './b2/htseq_2.0.5-1_arm64.buildinfo.asc'