Running as unit: rb-build-arm64_12-112060.service ==================================================================================== Wed Jul 30 05:31:04 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_12) on jenkins, called using "codethink04-arm64 codethink03-arm64" as arguments. Wed Jul 30 05:31:04 UTC 2025 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-rX3sAgoU" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Jul 30 05:31:04 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Wed Jul 30 05:31:04 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-GDCByR' Wed Jul 30 05:31:04 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Wed Jul 30 05:31:04 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-rzlOfb' ok, let's check if pairtools is building anywhere yet… ok, pairtools is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of pairtools in trixie on arm64 on jenkins now. 1st build will be done on codethink04-arm64.debian.net. 2nd build will be done on codethink03-arm64.debian.net. ============================================================================= Wed Jul 30 05:31:16 UTC 2025 I: starting to build pairtools/trixie/arm64 on jenkins on '2025-07-30 05:31' Wed Jul 30 05:31:16 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_12/112060/console.log 1753853476 arm64 trixie pairtools Wed Jul 30 05:31:16 UTC 2025 I: Downloading source for trixie/pairtools=1.1.3-1 --2025-07-30 05:31:17-- http://deb.debian.org/debian/pool/main/p/pairtools/pairtools_1.1.3-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2494 (2.4K) [text/prs.lines.tag] Saving to: ‘pairtools_1.1.3-1.dsc’ 0K .. 100% 283M=0s 2025-07-30 05:31:17 (283 MB/s) - ‘pairtools_1.1.3-1.dsc’ saved [2494/2494] --2025-07-30 05:31:17-- http://deb.debian.org/debian/pool/main/p/pairtools/pairtools_1.1.3-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2494 (2.4K) [text/prs.lines.tag] Saving to: ‘pairtools_1.1.3-1.dsc’ 0K .. 100% 283M=0s 2025-07-30 05:31:17 (283 MB/s) - ‘pairtools_1.1.3-1.dsc’ saved [2494/2494] Wed Jul 30 05:31:17 UTC 2025 I: pairtools_1.1.3-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pairtools Binary: python3-pairtools, python3-pairtools-examples Architecture: any Version: 1.1.3-1 Maintainer: Debian Med Packaging Team Uploaders: Antoni Villalonga Homepage: https://github.com/mirnylab/pairtools Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/pairtools Vcs-Git: https://salsa.debian.org/med-team/pairtools.git Testsuite: autopkgtest Testsuite-Triggers: python-is-python3, python3-pytest Build-Depends: debhelper-compat (= 13), dh-sequence-python3, architecture-is-64-bit, python3-all-dev, pybuild-plugin-pyproject, cython3, python-is-python3, python3-setuptools, python3-bioframe, python3-click, python3-exceptiongroup, python3-numpy, python3-pandas, python3-pysam (>= 0.20.0+ds-3~), python3-pytest , python3-standard-pipes, python3-scipy, libhts-dev, python3-yaml Package-List: python3-pairtools deb python optional arch=any python3-pairtools-examples deb python optional arch=any Checksums-Sha1: 22b5781654ae3d58b9a652bfc4dbb7be97be1157 1419753 pairtools_1.1.3.orig.tar.gz 81471a0b022432fb666fc8449b721db2d99e942b 7660 pairtools_1.1.3-1.debian.tar.xz Checksums-Sha256: 5d342e18538312d0592b8ab70ff380d3b27e22a5a590c943a17e4b51e543babf 1419753 pairtools_1.1.3.orig.tar.gz 0a545bcef3949fb1ae7cf8e63e87e9c0343dad3af7e4e45d236bcd93f2e9a353 7660 pairtools_1.1.3-1.debian.tar.xz Files: 25558f1f943165594ae6c41c8aa74b5c 1419753 pairtools_1.1.3.orig.tar.gz b6ce1b283527da3cc321f74f3841f85b 7660 pairtools_1.1.3-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmew31wRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEJug/6A9SzCcxfXzqVeYnzk9sKuni7LYndvIVk gos7gpTi19zSGS9zpbclyAUsZgM1PQYVDj9Q0gPE0TOS7PF2yjcMwk5W6KIYJG+9 sZodd+M2R6dnGrxaUa/0JBI84cGSVzx3NDd0n7BV7sUHxLDfKGfmc9xnh/I3U77k hhfNseMfzpEfO2UAkeaclD1UoMv8TXP0sgURzi3Ge0ycwAaNIbiSuFfX388ya7Zv PNqj0Nd4R5NHpM4B7vxaxdMPoxJ7kIEACQj4j3m+UF8uAQuF8ieYtok2bl/mNjqL n/ovmvH+W5hE4X1fv+J+wuYuQ31JAjvGCA2hMpp0/zGBV9V8JebSQLK3hUeboREs hQpsxT4gY4U6B2r79nz3/oQ+914Fm9JykoDyeYAuj1ZKwJsR5A+ILjuSK7dFPW70 J2s/TZb0CpCrVfeT45sjrmx4Vmoa/xzvg6f3YmJl1LyH+FTR4Tv5jzByn1+P2pZF 2rRxuSW6S+ghqx0VtxfomdzNu3HaGEVDOvxPhrtZgWcpuBVOeZPaiCpYEoWlZpEO +zUmAsFC+mR5OQQ7VoaYJ3g+HdATcTUBg5OYKLjwvBVKVAjU1CZ1iqIeQQ5bIDAN lmvscyGZUvBTZnJRlGieifbNtUhZpZ/Xh8Fp9b6GDDoxqfbDcLNyPj3UlxoK0xXp ANNuMdeJu+8= =Dm+8 -----END PGP SIGNATURE----- Wed Jul 30 05:31:17 UTC 2025 I: Checking whether the package is not for us Wed Jul 30 05:31:17 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net. Wed Jul 30 05:31:17 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Wed Jul 30 05:31:17 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Wed Jul 30 05:31:17 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-I2ESnx' ==================================================================================== Wed Jul 30 05:31:22 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "1 pairtools trixie /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk 1.1.3-1" as arguments. Wed Jul 30 05:31:22 UTC 2025 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-zsFnieBO" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Jul 30 05:31:22 UTC 2025 I: Downloading source for trixie/pairtools=1.1.3-1 Reading package lists... NOTICE: 'pairtools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pairtools.git Please use: git clone https://salsa.debian.org/med-team/pairtools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1430 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (dsc) [2494 B] Get:2 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (tar) [1420 kB] Get:3 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (diff) [7660 B] Fetched 1430 kB in 0s (11.0 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'pairtools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pairtools.git Please use: git clone https://salsa.debian.org/med-team/pairtools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1430 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (dsc) [2494 B] Get:2 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (tar) [1420 kB] Get:3 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (diff) [7660 B] Fetched 1430 kB in 0s (11.0 MB/s) Download complete and in download only mode ============================================================================= Building pairtools in trixie on arm64 on codethink04-arm64 now. Date: Wed Jul 30 06:31:23 BST 2025 Date UTC: Wed Jul 30 05:31:23 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Tue Jul 29 17:31:23 -12 2025 I: pbuilder-time-stamp: 1753853483 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 [pairtools_1.1.3-1.dsc] I: copying [./pairtools_1.1.3.orig.tar.gz] I: copying [./pairtools_1.1.3-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./pairtools_1.1.3-1.dsc: no acceptable signature found dpkg-source: info: extracting pairtools in pairtools-1.1.3 dpkg-source: info: unpacking pairtools_1.1.3.orig.tar.gz dpkg-source: info: unpacking pairtools_1.1.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying makefile dpkg-source: info: applying fix-spelling dpkg-source: info: applying tests-to-python3 dpkg-source: info: applying fix-pysam-ftbfs.patch dpkg-source: info: applying do-not-run-coverage.patch dpkg-source: info: applying no_install_depends_cython.patch dpkg-source: info: applying syntax_warning.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/828143/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=' ' INVOCATION_ID='e130b9768d5245fea75085e17d115027' 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='828143' 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.6sWn9CGk/pbuilderrc_0gV6 --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.6sWn9CGk/b1 --logfile b1/build.log pairtools_1.1.3-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/828143/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, architecture-is-64-bit, python3-all-dev, pybuild-plugin-pyproject, cython3, python-is-python3, python3-setuptools, python3-bioframe, python3-click, python3-exceptiongroup, python3-numpy, python3-pandas, python3-pysam (>= 0.20.0+ds-3~), python3-pytest, python3-standard-pipes, python3-scipy, libhts-dev, python3-yaml dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19964 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python-is-python3; however: Package python-is-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-bioframe; however: Package python3-bioframe is not installed. pbuilder-satisfydepends-dummy depends on python3-click; however: Package python3-click is not installed. pbuilder-satisfydepends-dummy depends on python3-exceptiongroup; however: Package python3-exceptiongroup is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam (>= 0.20.0+ds-3~); however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-standard-pipes; however: Package python3-standard-pipes is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml 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: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} ca-certificates{a} comerr-dev{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} krb5-multidev{a} libarchive-zip-perl{a} libblas3{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcrypt20{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libidn2-dev{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libopenjp2-7{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libpng16-16t64{a} libpsl-dev{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{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} libyaml-0-2{a} libzopfli1{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} pybuild-plugin-pyproject{a} python-is-python3{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-attr{a} python3-autocommand{a} python3-bioframe{a} python3-brotli{a} python3-build{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-exceptiongroup{a} python3-fonttools{a} python3-fs{a} python3-idna{a} python3-inflect{a} python3-iniconfig{a} python3-installer{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-platformdirs{a} python3-pluggy{a} python3-pyparsing{a} python3-pyproject-hooks{a} python3-pysam{a} python3-pytest{a} python3-pytz{a} python3-requests{a} python3-scipy{a} python3-setuptools{a} python3-standard-pipes{a} python3-sympy{a} python3-tk{a} python3-typeguard{a} python3-typing-extensions{a} python3-ufolib2{a} python3-urllib3{a} python3-wheel{a} python3-yaml{a} python3-zipp{a} python3-zopfli{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} python3.13-tk{a} readline-common{a} sensible-utils{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: bzip2-doc curl isympy-common javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgpg-error-l10n libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix python3-bottleneck python3-bs4 python3-cssselect python3-html5lib python3-jinja2 python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pooch python3-pygments python3-tables python3-tz shared-mime-info wget xdg-user-dirs 0 packages upgraded, 233 newly installed, 0 to remove and 0 not upgraded. Need to get 139 MB of archives. After unpacking 580 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.7.1-2 [93.3 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libpython3.13-minimal arm64 3.13.5-2 [856 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 python3.13-minimal arm64 3.13.5-2 [2003 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.13.5-1 [27.2 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 tzdata all 2025b-4 [260 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpython3.13-stdlib arm64 3.13.5-2 [1892 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 python3.13 arm64 3.13.5-2 [757 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.13.5-1 [10.2 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.13.5-1 [28.2 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.1-4 [104 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.1-4 [1819 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 openssl arm64 3.5.1-1 [1457 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 ca-certificates all 20250419 [162 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-2 [241 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.41-5 [93.8 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 architecture-properties arm64 0.2.6 [2336 B] Get: 33 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-8 [285 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-4 [862 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [984 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.48-1 [274 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-2.3 [318 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-2.3 [387 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 libxft2 arm64 2.3.6-1+b4 [51.6 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+24 [217 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libxss1 arm64 1:1.2.3-1+b3 [17.1 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libtk8.6 arm64 8.6.16-1 [741 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-8 [537 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 blt arm64 2.5.3+dfsg-8 [5984 B] Get: 59 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.2-3+b2 [24.9 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 comerr-dev arm64 2.1-1.47.2-3+b2 [56.9 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 cython3 arm64 3.0.11+dfsg-2+b1 [2255 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-4 [539 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 68 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-2 [629 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-2 [1611 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.2 [919 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20250414 [116 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 fonts-lyx all 2.4.3-1 [190 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 81 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 libidn2-0 arm64 2.3.8-2 [107 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libgnutls30t64 arm64 3.8.9-3 [1375 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.64.0-1.1 [71.4 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libnghttp3-9 arm64 1.8.0-1 [63.2 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libngtcp2-16 arm64 1.11.0-1 [121 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls8 arm64 1.11.0-1 [28.2 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.14.1-2 [353 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libunbound8 arm64 1.22.0-2 [553 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 libgnutls-dane0t64 arm64 3.8.9-3 [453 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libgnutls-openssl27t64 arm64 3.8.9-3 [453 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 libidn2-dev arm64 2.3.8-2 [101 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB] Get: 113 http://deb.debian.org/debian trixie/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 libgnutls28-dev arm64 3.8.9-3 [1416 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 121 http://deb.debian.org/debian trixie/main arm64 libnghttp2-dev arm64 1.64.0-1.1 [112 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 libnghttp3-dev arm64 1.8.0-1 [89.4 kB] Get: 123 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.11.0-1 [33.9 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 libngtcp2-dev arm64 1.11.0-1 [174 kB] Get: 125 http://deb.debian.org/debian trixie/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 126 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 127 http://deb.debian.org/debian trixie/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 libssl-dev arm64 3.5.1-1 [3385 kB] Get: 129 http://deb.debian.org/debian trixie/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 130 http://deb.debian.org/debian trixie/main arm64 libzstd-dev arm64 1.5.7+dfsg-1 [335 kB] Get: 131 http://deb.debian.org/debian trixie/main arm64 libcurl4-gnutls-dev arm64 8.14.1-2 [489 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 133 http://deb.debian.org/debian trixie/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.7.1-2 [145 kB] Get: 135 http://deb.debian.org/debian trixie/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 136 http://deb.debian.org/debian trixie/main arm64 libgpg-error0 arm64 1.51-4 [78.5 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 libgcrypt20 arm64 1.11.0-7 [742 kB] Get: 138 http://deb.debian.org/debian trixie/main arm64 libglib2.0-0t64 arm64 2.84.3-1 [1426 kB] Get: 139 http://deb.debian.org/debian trixie/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 140 http://deb.debian.org/debian trixie/main arm64 libharfbuzz0b arm64 10.2.0-1+b1 [442 kB] Get: 141 http://deb.debian.org/debian trixie/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 142 http://deb.debian.org/debian trixie/main arm64 libhts3t64 arm64 1.21+ds-1 [426 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 liblzma-dev arm64 5.8.1-1 [344 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 libhts-dev arm64 1.21+ds-1 [1658 kB] Get: 145 http://deb.debian.org/debian trixie/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB] Get: 146 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 147 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Get: 148 http://deb.debian.org/debian trixie/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 149 http://deb.debian.org/debian trixie/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 150 http://deb.debian.org/debian trixie/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 151 http://deb.debian.org/debian trixie/main arm64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 152 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 153 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 154 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.3-2 [190 kB] Get: 155 http://deb.debian.org/debian trixie/main arm64 libpython3.13 arm64 3.13.5-2 [1976 kB] Get: 156 http://deb.debian.org/debian trixie/main arm64 libpython3.13-dev arm64 3.13.5-2 [4890 kB] Get: 157 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.13.5-1 [10.4 kB] Get: 158 http://deb.debian.org/debian trixie/main arm64 libpython3-all-dev arm64 3.13.5-1 [1068 B] Get: 159 http://deb.debian.org/debian trixie/main arm64 libqhull-r8.0 arm64 2020.2-6+b2 [229 kB] Get: 160 http://deb.debian.org/debian trixie/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB] Get: 161 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 162 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 163 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.7.0-3 [325 kB] Get: 164 http://deb.debian.org/debian trixie/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB] Get: 165 http://deb.debian.org/debian trixie/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB] Get: 166 http://deb.debian.org/debian trixie/main arm64 libxslt1.1 arm64 1.1.35-1.2 [221 kB] Get: 167 http://deb.debian.org/debian trixie/main arm64 libyaml-0-2 arm64 0.2.5-2 [49.2 kB] Get: 168 http://deb.debian.org/debian trixie/main arm64 libzopfli1 arm64 1.0.3-3 [95.2 kB] Get: 169 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 170 http://deb.debian.org/debian trixie/main arm64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 171 http://deb.debian.org/debian trixie/main arm64 python3-wheel all 0.46.1-2 [21.7 kB] Get: 172 http://deb.debian.org/debian trixie/main arm64 python3-build all 1.2.2-2 [36.1 kB] Get: 173 http://deb.debian.org/debian trixie/main arm64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 174 http://deb.debian.org/debian trixie/main arm64 pybuild-plugin-pyproject all 6.20250414 [11.8 kB] Get: 175 http://deb.debian.org/debian trixie/main arm64 python-is-python3 all 3.13.3-1 [3204 B] Get: 176 http://deb.debian.org/debian trixie/main arm64 python-matplotlib-data all 3.10.1+dfsg1-4 [2737 kB] Get: 177 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.13.5-1 [1044 B] Get: 178 http://deb.debian.org/debian trixie/main arm64 python3.13-dev arm64 3.13.5-2 [505 kB] Get: 179 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.13.5-1 [26.1 kB] Get: 180 http://deb.debian.org/debian trixie/main arm64 python3-all-dev arm64 3.13.5-1 [1068 B] Get: 181 http://deb.debian.org/debian trixie/main arm64 python3-attr all 25.3.0-1 [69.5 kB] Get: 182 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 183 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.7.0-1 [67.4 kB] Get: 184 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 185 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 186 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 187 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 188 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 189 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 190 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 191 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 192 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 193 http://deb.debian.org/debian trixie/main arm64 python3-dateutil all 2.9.0-4 [79.4 kB] Get: 194 http://deb.debian.org/debian trixie/main arm64 python3-pil arm64 11.1.0-5+b1 [495 kB] Get: 195 http://deb.debian.org/debian trixie/main arm64 python3.13-tk arm64 3.13.5-2 [105 kB] Get: 196 http://deb.debian.org/debian trixie/main arm64 python3-tk arm64 3.13.5-1 [9604 B] Get: 197 http://deb.debian.org/debian trixie/main arm64 python3-pil.imagetk arm64 11.1.0-5+b1 [81.8 kB] Get: 198 http://deb.debian.org/debian trixie/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 199 http://deb.debian.org/debian trixie/main arm64 python3-contourpy arm64 1.3.1-1+b1 [190 kB] Get: 200 http://deb.debian.org/debian trixie/main arm64 python3-cycler all 0.12.1-1 [9496 B] Get: 201 http://deb.debian.org/debian trixie/main arm64 python3-brotli arm64 1.1.0-2+b7 [300 kB] Get: 202 http://deb.debian.org/debian trixie/main arm64 python3-platformdirs all 4.3.7-1 [16.6 kB] Get: 203 http://deb.debian.org/debian trixie/main arm64 python3-fs all 2.4.16-7 [95.2 kB] Get: 204 http://deb.debian.org/debian trixie/main arm64 python3-lxml arm64 5.4.0-1 [1139 kB] Get: 205 http://deb.debian.org/debian trixie/main arm64 python3-lz4 arm64 4.4.0+dfsg-2 [25.3 kB] Get: 206 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 207 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.15.3-1 [14.9 MB] Get: 208 http://deb.debian.org/debian trixie/main arm64 python3-mpmath all 1.3.0-1 [419 kB] Get: 209 http://deb.debian.org/debian trixie/main arm64 python3-sympy all 1.13.3-5 [4148 kB] Get: 210 http://deb.debian.org/debian trixie/main arm64 python3-ufolib2 all 0.17.1+dfsg1-1 [33.0 kB] Get: 211 http://deb.debian.org/debian trixie/main arm64 python3-zopfli arm64 0.2.3.post1-1 [10.2 kB] Get: 212 http://deb.debian.org/debian trixie/main arm64 unicode-data all 15.1.0-1 [8547 kB] Get: 213 http://deb.debian.org/debian trixie/main arm64 python3-fonttools arm64 4.57.0-1 [1366 kB] Get: 214 http://deb.debian.org/debian trixie/main arm64 python3-kiwisolver arm64 1.4.7-3+b1 [57.8 kB] Get: 215 http://deb.debian.org/debian trixie/main arm64 python3-matplotlib arm64 3.10.1+dfsg1-4 [23.7 MB] Get: 216 http://deb.debian.org/debian trixie/main arm64 python3-pytz all 2025.2-3 [152 kB] Get: 217 http://deb.debian.org/debian trixie/main arm64 python3-pandas-lib arm64 2.2.3+dfsg-9 [3877 kB] Get: 218 http://deb.debian.org/debian trixie/main arm64 python3-pandas all 2.2.3+dfsg-9 [3097 kB] Get: 219 http://deb.debian.org/debian trixie/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 220 http://deb.debian.org/debian trixie/main arm64 python3-charset-normalizer arm64 3.4.2-1 [120 kB] Get: 221 http://deb.debian.org/debian trixie/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 222 http://deb.debian.org/debian trixie/main arm64 python3-urllib3 all 2.3.0-3 [115 kB] Get: 223 http://deb.debian.org/debian trixie/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 224 http://deb.debian.org/debian trixie/main arm64 python3-requests all 2.32.3+dfsg-5 [72.2 kB] Get: 225 http://deb.debian.org/debian trixie/main arm64 python3-bioframe all 0.4.1-2 [71.9 kB] Get: 226 http://deb.debian.org/debian trixie/main arm64 python3-click all 8.2.0+0.really.8.1.8-1 [95.4 kB] Get: 227 http://deb.debian.org/debian trixie/main arm64 python3-exceptiongroup all 1.2.2-1 [19.7 kB] Get: 228 http://deb.debian.org/debian trixie/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 229 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 230 http://deb.debian.org/debian trixie/main arm64 python3-pysam arm64 0.23.0+ds-1+b1 [3417 kB] Get: 231 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 232 http://deb.debian.org/debian trixie/main arm64 python3-standard-pipes all 3.13.0-5 [7376 B] Get: 233 http://deb.debian.org/debian trixie/main arm64 python3-yaml arm64 6.0.2-1+b2 [122 kB] Fetched 139 MB in 1s (232 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 19964 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.5-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.5-2) ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.5-2_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.5-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.5-2_arm64.deb ... Unpacking python3.13 (3.13.5-2) ... 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Setting up fonts-lyx (2.4.3-1) ... Setting up libdebhelper-perl (13.24.2) ... Setting up libbrotli1:arm64 (1.1.0-2+b7) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up x11-common (1:7.7+24) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libnghttp2-14:arm64 (1.64.0-1.1) ... Setting up libdeflate0:arm64 (1.23-2) ... Setting up gettext-base (0.23.1-2) ... Setting up m4 (1.4.19-8) ... Setting up libevent-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up libgcrypt20:arm64 (1.11.0-7) ... Setting up libqhull-r8.0:arm64 (2020.2-6+b2) ... Setting up libcom-err2:arm64 (1.47.2-3+b2) ... Setting up file (1:5.46-5) ... Setting up libjbig0:arm64 (2.1-6.1+b2) ... Setting up libelf1t64:arm64 (0.192-4) ... Setting up libkrb5support0:arm64 (1.21.3-5) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-9) ... Setting up tzdata (2025b-4) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Jul 30 05:32:09 UTC 2025. Universal Time is now: Wed Jul 30 05:32:09 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... Setting up autotools-dev (20240727.1) ... Setting up libblas3:arm64 (3.12.1-4) ... 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 libunbound8:arm64 (1.22.0-2) ... Setting up libpkgconf3:arm64 (1.8.1-4) ... Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-3) ... Setting up libexpat1-dev:arm64 (2.7.1-2) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-4) ... Setting up libzopfli1 (1.0.3-3) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libfribidi0:arm64 (1.0.16-1) ... Setting up libimagequant0:arm64 (2.18.0-1+b2) ... Setting up comerr-dev:arm64 (2.1-1.47.2-3+b2) ... Setting up libunistring5:arm64 (1.3-2) ... 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Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up liblapack3:arm64 (3.12.1-4) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-2) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ... Setting up nettle-dev:arm64 (3.10.1-1) ... Setting up libxrender1:arm64 (1:0.9.12-1) ... Setting up libtool (2.5.4-4) ... Setting up fontconfig-config (2.15.0-2.3) ... Setting up libwebpdemux2:arm64 (1.5.0-0.1) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libidn2-0:arm64 (2.3.8-2) ... Setting up libngtcp2-dev:arm64 (1.11.0-1) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:arm64 (2.84.3-1) ... No schema files found: doing nothing. Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.8-2) ... Setting up libjs-sphinxdoc (8.1.3-5) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up libxslt1.1:arm64 (1.1.35-1.2) ... Setting up libharfbuzz0b:arm64 (10.2.0-1+b1) ... Setting up libxss1:arm64 (1:1.2.3-1+b3) ... Setting up libfontconfig1:arm64 (2.15.0-2.3) ... Setting up libpython3.13-stdlib:arm64 (3.13.5-2) ... Setting up libp11-kit-dev:arm64 (0.25.5-3) ... Setting up libpython3-stdlib:arm64 (3.13.5-1) ... Setting up libpython3.13:arm64 (3.13.5-2) ... Setting up libgnutls30t64:arm64 (3.8.9-3) ... Setting up libgnutls-openssl27t64:arm64 (3.8.9-3) ... Setting up libnghttp2-dev:arm64 (1.64.0-1.1) ... Setting up libxft2:arm64 (2.3.6-1+b4) ... Setting up python3.13 (3.13.5-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:arm64 (8.6.16-1) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up python3 (3.13.5-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-click (8.2.0+0.really.8.1.8-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3.13-tk (3.13.5-2) ... Setting up python3-platformdirs (4.3.7-1) ... Setting up python3-zopfli (0.2.3.post1-1) ... Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ... Setting up python3-fs (2.4.16-7) ... Setting up python3-decorator (5.2.1-2) ... 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Setting up python3-exceptiongroup (1.2.2-1) ... Setting up python3-dateutil (2.9.0-4) ... Setting up python3-contourpy (1.3.1-1+b1) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python-is-python3 (3.13.3-1) ... Setting up libngtcp2-crypto-gnutls8:arm64 (1.11.0-1) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-5) ... Setting up dh-python (6.20250414) ... Setting up libgnutls28-dev:arm64 (3.8.9-3) ... Setting up python3-more-itertools (10.7.0-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-sympy (1.13.3-5) ... Setting up python3-attr (25.3.0-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-8) ... Setting up python3-scipy (1.15.3-1) ... Setting up libpython3-dev:arm64 (3.13.5-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-standard-pipes (3.13.0-5) ... Setting up libkdb5-10t64:arm64 (1.21.3-5) ... Setting up python3-lz4 (4.4.0+dfsg-2) ... Setting up python3-charset-normalizer (3.4.2-1) ... Setting up python3.13-dev (3.13.5-2) ... Setting up python3-pytest (8.3.5-2) ... Setting up blt (2.5.3+dfsg-8) ... Setting up python3-pandas-lib:arm64 (2.2.3+dfsg-9) ... Setting up python3-typeguard (4.4.2-1) ... Setting up libcurl3t64-gnutls:arm64 (8.14.1-2) ... Setting up python3-all (3.13.5-1) ... Setting up python3-yaml (6.0.2-1+b2) ... Setting up python3-tk:arm64 (3.13.5-1) ... Setting up debhelper (13.24.2) ... Setting up python3-pytz (2025.2-3) ... Setting up libngtcp2-crypto-gnutls-dev:arm64 (1.11.0-1) ... Setting up python3-wheel (0.46.1-2) ... Setting up python3-pil:arm64 (11.1.0-5+b1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-pandas (2.2.3+dfsg-9) ... Setting up python3-pil.imagetk:arm64 (11.1.0-5+b1) ... Setting up libpython3-all-dev:arm64 (3.13.5-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-dev (3.13.5-1) ... Setting up python3-requests (2.32.3+dfsg-5) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up libhts3t64:arm64 (1.21+ds-1) ... Setting up python3-build (1.2.2-2) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-all-dev (3.13.5-1) ... Setting up python3-pysam (0.23.0+ds-1+b1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up pybuild-plugin-pyproject (6.20250414) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up libcurl4-gnutls-dev:arm64 (8.14.1-2) ... Setting up libhts-dev:arm64 (1.21+ds-1) ... Setting up python3-fonttools (4.57.0-1) ... Setting up python3-ufolib2 (0.17.1+dfsg1-1) ... Setting up python3-matplotlib (3.10.1+dfsg1-4) ... Setting up python3-bioframe (0.4.1-2) ... Processing triggers for libc-bin (2.41-11) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 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/pairtools-1.1.3/ && 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 > ../pairtools_1.1.3-1_source.changes dpkg-buildpackage: info: source package pairtools dpkg-buildpackage: info: source version 1.1.3-1 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 --with numpy3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' rm -f pairtools/lib/*.c pairtools/lib/regions.cpp make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with numpy3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:129: Building wheel for python3.13 with "build" module I: pybuild base:311: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools * Building wheel... /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/dedup_cython.pyx tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/parse_pysam.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/regions.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling pairtools/lib/regions.pyx because it changed. Compiling pairtools/lib/parse_pysam.pyx because it changed. Compiling pairtools/lib/dedup_cython.pyx because it changed. [1/3] Cythonizing pairtools/lib/dedup_cython.pyx [2/3] Cythonizing pairtools/lib/parse_pysam.pyx [3/3] Cythonizing pairtools/lib/regions.pyx /usr/lib/python3/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated !! ******************************************************************************** Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). By 2026-Feb-18, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! corresp(dist, value, root_dir) /usr/lib/python3/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! dist._finalize_license_expression() /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running bdist_wheel running build running build_py creating build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/_logging.py -> build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/__main__.py -> build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools creating build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/stats.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/select.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/scaling.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/restrict.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/phase.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/pairsio.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/pairsam_format.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/headerops.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/filterbycov.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/fileio.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/dedup.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib creating build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/select.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/stats.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/split.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/sort.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/scaling.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/sample.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/restrict.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/phase.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/parse2.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/parse.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/merge.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/markasdup.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/header.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/flip.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/filterbycov.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/dedup.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli running egg_info creating pairtools.egg-info writing pairtools.egg-info/PKG-INFO writing dependency_links to pairtools.egg-info/dependency_links.txt writing entry points to pairtools.egg-info/entry_points.txt writing requirements to pairtools.egg-info/requires.txt writing top-level names to pairtools.egg-info/top_level.txt writing manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'doc/_build' no previously-included directories found matching 'doc/_templates' warning: no previously-included files matching '__pycache__/*' found anywhere in distribution warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.pyd' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '.git*' found anywhere in distribution warning: no previously-included files matching '.deps/*' found anywhere in distribution warning: no previously-included files matching '.DS_Store' found anywhere in distribution adding license file 'LICENSE' writing manifest file 'pairtools.egg-info/SOURCES.txt' copying pairtools/lib/dedup_cython.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse_pysam.pxd -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse_pysam.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/regions.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib running build_ext building 'pairtools.lib.regions' extension creating build/temp.linux-aarch64-cpython-313/pairtools/lib aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/regions.cpp -o build/temp.linux-aarch64-cpython-313/pairtools/lib/regions.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from pairtools/lib/regions.cpp:1302: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ pairtools/lib/regions.cpp:2610:21: warning: 'Py_UNICODE' is deprecated [-Wdeprecated-declarations] 2610 | Py_UNICODE *as_pyunicodes; | ^~~~~~~~~~~~~ In file included from /usr/include/python3.13/unicodeobject.h:1014, from /usr/include/python3.13/Python.h:79, from pairtools/lib/regions.cpp:30: /usr/include/python3.13/cpython/unicodeobject.h:10:37: note: declared here 10 | Py_DEPRECATED(3.13) typedef wchar_t Py_UNICODE; | ^~~~~~~~~~ aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/regions.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so building 'pairtools.lib.parse_pysam' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipairtools/lib -I/usr/lib/python3/dist-packages/pysam -I/usr/lib/python3/dist-packages/pysam/include/samtools -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/parse_pysam.c -o build/temp.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.o pairtools/lib/parse_pysam.c:3259:9: warning: 'Py_UNICODE' is deprecated [-Wdeprecated-declarations] 3259 | Py_UNICODE *as_pyunicodes; | ^~~~~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabixproxies.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcfaidx.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcsamfile.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcvcf.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcbcf.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabix.cpython-313-aarch64-linux-gnu.so building 'pairtools.lib.dedup_cython' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/dedup_cython.c -o build/temp.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from pairtools/lib/dedup_cython.c:1240: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so installing to build/bdist.linux-aarch64/wheel running install running install_lib creating build/bdist.linux-aarch64/wheel creating build/bdist.linux-aarch64/wheel/pairtools creating build/bdist.linux-aarch64/wheel/pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/dedup.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/filterbycov.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/flip.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/header.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/markasdup.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/merge.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/parse.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/parse2.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/phase.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/restrict.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/sample.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/scaling.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/sort.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/split.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/stats.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/select.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli creating build/bdist.linux-aarch64/wheel/pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.pxd -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/fileio.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/filterbycov.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/headerops.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/pairsam_format.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/pairsio.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/phase.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/restrict.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/scaling.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/select.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/stats.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools copying build/lib.linux-aarch64-cpython-313/pairtools/__main__.py -> build/bdist.linux-aarch64/wheel/./pairtools copying build/lib.linux-aarch64-cpython-313/pairtools/_logging.py -> build/bdist.linux-aarch64/wheel/./pairtools running install_egg_info Copying pairtools.egg-info to build/bdist.linux-aarch64/wheel/./pairtools-1.1.3.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/pairtools-1.1.3.dist-info/WHEEL creating '/build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/.tmp-7trsq4lt/pairtools-1.1.3-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'pairtools/__init__.py' adding 'pairtools/__main__.py' adding 'pairtools/_logging.py' adding 'pairtools/cli/__init__.py' adding 'pairtools/cli/dedup.py' adding 'pairtools/cli/filterbycov.py' adding 'pairtools/cli/flip.py' adding 'pairtools/cli/header.py' adding 'pairtools/cli/markasdup.py' adding 'pairtools/cli/merge.py' adding 'pairtools/cli/parse.py' adding 'pairtools/cli/parse2.py' adding 'pairtools/cli/phase.py' adding 'pairtools/cli/restrict.py' adding 'pairtools/cli/sample.py' adding 'pairtools/cli/scaling.py' adding 'pairtools/cli/select.py' adding 'pairtools/cli/sort.py' adding 'pairtools/cli/split.py' adding 'pairtools/cli/stats.py' adding 'pairtools/lib/__init__.py' adding 'pairtools/lib/dedup.py' adding 'pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/dedup_cython.pyx' adding 'pairtools/lib/fileio.py' adding 'pairtools/lib/filterbycov.py' adding 'pairtools/lib/headerops.py' adding 'pairtools/lib/pairsam_format.py' adding 'pairtools/lib/pairsio.py' adding 'pairtools/lib/parse.py' adding 'pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/parse_pysam.pxd' adding 'pairtools/lib/parse_pysam.pyx' adding 'pairtools/lib/phase.py' adding 'pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/regions.pyx' adding 'pairtools/lib/restrict.py' adding 'pairtools/lib/scaling.py' adding 'pairtools/lib/select.py' adding 'pairtools/lib/stats.py' adding 'pairtools-1.1.3.dist-info/licenses/LICENSE' adding 'pairtools-1.1.3.dist-info/METADATA' adding 'pairtools-1.1.3.dist-info/WHEEL' adding 'pairtools-1.1.3.dist-info/entry_points.txt' adding 'pairtools-1.1.3.dist-info/top_level.txt' adding 'pairtools-1.1.3.dist-info/RECORD' removing build/bdist.linux-aarch64/wheel Successfully built pairtools-1.1.3-cp313-cp313-linux_aarch64.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' dh_auto_test -- --system=custom --test-args="export CURPY={interpreter}; \ cd {build_dir} && {interpreter} -m pytest -v -k 'not test_dedup and not test_mock_pysam_parse2_single_end'" I: pybuild base:311: export CURPY=python3.13; cd /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build && python3.13 -m pytest -v -k 'not test_dedup and not test_mock_pysam_parse2_single_end' ============================= test session starts ============================== platform linux -- Python 3.13.5, pytest-8.3.5, pluggy-1.5.0 -- /usr/bin/python3.13 cachedir: .pytest_cache rootdir: /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build configfile: pytest.ini testpaths: tests plugins: typeguard-4.4.2 collecting ... collected 34 items / 3 deselected / 31 selected tests/test_filterbycov.py::test_mock_pairs PASSED [ 3%] tests/test_flip.py::test_flip PASSED [ 6%] tests/test_header.py::test_generate PASSED [ 9%] tests/test_headerops.py::test_make_standard_header PASSED [ 12%] tests/test_headerops.py::test_samheaderops PASSED [ 16%] tests/test_headerops.py::test_merge_pairheaders PASSED [ 19%] tests/test_headerops.py::test_merge_different_pairheaders PASSED [ 22%] tests/test_headerops.py::test_force_merge_pairheaders PASSED [ 25%] tests/test_headerops.py::test_merge_samheaders PASSED [ 29%] tests/test_headerops.py::test_merge_headers PASSED [ 32%] tests/test_markasdup.py::test_mock_pairsam PASSED [ 35%] tests/test_merge.py::test_mock_pairsam PASSED [ 38%] tests/test_parse.py::test_python_version PASSED [ 41%] tests/test_parse.py::test_mock_pysam PASSED [ 45%] tests/test_parse.py::test_mock_pysam_parse_all PASSED [ 48%] tests/test_parse2.py::test_mock_pysam_parse2_read PASSED [ 51%] tests/test_parse2.py::test_mock_pysam_parse2_pair PASSED [ 54%] tests/test_restrict.py::test_restrict PASSED [ 58%] tests/test_scaling.py::test_scaling PASSED [ 61%] tests/test_select.py::test_preserve PASSED [ 64%] tests/test_select.py::test_equal PASSED [ 67%] tests/test_select.py::test_csv PASSED [ 70%] tests/test_select.py::test_wildcard PASSED [ 74%] tests/test_select.py::test_regex PASSED [ 77%] tests/test_select.py::test_chrom_subset PASSED [ 80%] tests/test_select.py::test_remove_columns PASSED [ 83%] tests/test_sort.py::test_mock_pairsam PASSED [ 87%] tests/test_split.py::test_split PASSED [ 90%] tests/test_stats.py::test_mock_pairsam PASSED [ 93%] tests/test_stats.py::test_merge_stats PASSED [ 96%] tests/test_stats.py::test_find_dist_freq_convergence_distance PASSED [100%] =============================== warnings summary =============================== pairtools/lib/fileio.py:2 /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/fileio.py:2: DeprecationWarning: pipes was removed in Python 3.13. Please be aware that you are currently NOT using standard 'pipes', but instead a separately installed 'standard-pipes'. import pipes tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:466: RuntimeWarning: divide by zero encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:474: RuntimeWarning: divide by zero encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:410: RuntimeWarning: invalid value encountered in divide np.abs(dist_freqs_by_strands[strands] - avg_freq_all_strands) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:466: RuntimeWarning: invalid value encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:474: RuntimeWarning: invalid value encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ================ 31 passed, 3 deselected, 6 warnings in 42.34s ================= make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir debian/rules execute_after_dh_auto_install make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' find debian/ -name '*.stats' -delete make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/python3-pairtools/usr/bin/pairtools dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=pybuild debian/rules override_dh_numpy3 make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' dh_numpy3 -p python3-pairtools Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Depends field of package python3-pairtools-examples: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pairtools-dbgsym' in '../python3-pairtools-dbgsym_1.1.3-1_arm64.deb'. dpkg-deb: building package 'python3-pairtools' in '../python3-pairtools_1.1.3-1_arm64.deb'. dpkg-deb: building package 'python3-pairtools-examples' in '../python3-pairtools-examples_1.1.3-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../pairtools_1.1.3-1_arm64.buildinfo dpkg-genchanges --build=binary -O../pairtools_1.1.3-1_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/828143 and its subdirectories I: Current time: Tue Jul 29 17:34:05 -12 2025 I: pbuilder-time-stamp: 1753853645 Wed Jul 30 05:34:05 UTC 2025 I: Signing ./b1/pairtools_1.1.3-1_arm64.buildinfo as pairtools_1.1.3-1_arm64.buildinfo.asc Wed Jul 30 05:34:05 UTC 2025 I: Signed ./b1/pairtools_1.1.3-1_arm64.buildinfo as ./b1/pairtools_1.1.3-1_arm64.buildinfo.asc Wed Jul 30 05:34:05 UTC 2025 - build #1 for pairtools/trixie/arm64 on codethink04-arm64 done. Starting cleanup. All cleanup done. Wed Jul 30 05:34:05 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-zsFnieBO, removing. /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Jul 30 05:34 b1 drwxr-xr-x 2 jenkins jenkins 4096 Jul 30 05:31 b2 -rw-r--r-- 1 jenkins jenkins 2494 Feb 15 18:46 pairtools_1.1.3-1.dsc -rw------- 1 jenkins jenkins 3615 Jul 30 05:31 rbuildlog.u8gP2iU /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b1: total 3452 -rw-r--r-- 1 jenkins jenkins 120326 Jul 30 05:34 build.log -rw-r--r-- 1 jenkins jenkins 7660 Jul 30 05:34 pairtools_1.1.3-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2494 Jul 30 05:34 pairtools_1.1.3-1.dsc -rw-r--r-- 1 jenkins jenkins 11679 Jul 30 05:34 pairtools_1.1.3-1_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 12561 Jul 30 05:34 pairtools_1.1.3-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2114 Jul 30 05:34 pairtools_1.1.3-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 1721 Jul 30 05:34 pairtools_1.1.3-1_source.changes -rw-r--r-- 1 jenkins jenkins 1419753 Jul 30 05:34 pairtools_1.1.3.orig.tar.gz -rw-r--r-- 1 jenkins jenkins 781628 Jul 30 05:34 python3-pairtools-dbgsym_1.1.3-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 965564 Jul 30 05:34 python3-pairtools-examples_1.1.3-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 188668 Jul 30 05:34 python3-pairtools_1.1.3-1_arm64.deb /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b2: total 0 Wed Jul 30 05:34:07 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jul 29 17:31:23 -12 2025 I: pbuilder-time-stamp: 1753853483 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 [pairtools_1.1.3-1.dsc] I: copying [./pairtools_1.1.3.orig.tar.gz] I: copying [./pairtools_1.1.3-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./pairtools_1.1.3-1.dsc: no acceptable signature found dpkg-source: info: extracting pairtools in pairtools-1.1.3 dpkg-source: info: unpacking pairtools_1.1.3.orig.tar.gz dpkg-source: info: unpacking pairtools_1.1.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying makefile dpkg-source: info: applying fix-spelling dpkg-source: info: applying tests-to-python3 dpkg-source: info: applying fix-pysam-ftbfs.patch dpkg-source: info: applying do-not-run-coverage.patch dpkg-source: info: applying no_install_depends_cython.patch dpkg-source: info: applying syntax_warning.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/828143/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=' ' INVOCATION_ID='e130b9768d5245fea75085e17d115027' 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='828143' 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.6sWn9CGk/pbuilderrc_0gV6 --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.6sWn9CGk/b1 --logfile b1/build.log pairtools_1.1.3-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/828143/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, architecture-is-64-bit, python3-all-dev, pybuild-plugin-pyproject, cython3, python-is-python3, python3-setuptools, python3-bioframe, python3-click, python3-exceptiongroup, python3-numpy, python3-pandas, python3-pysam (>= 0.20.0+ds-3~), python3-pytest, python3-standard-pipes, python3-scipy, libhts-dev, python3-yaml dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19964 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python-is-python3; however: Package python-is-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-bioframe; however: Package python3-bioframe is not installed. pbuilder-satisfydepends-dummy depends on python3-click; however: Package python3-click is not installed. pbuilder-satisfydepends-dummy depends on python3-exceptiongroup; however: Package python3-exceptiongroup is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam (>= 0.20.0+ds-3~); however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-standard-pipes; however: Package python3-standard-pipes is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml 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: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} ca-certificates{a} comerr-dev{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} krb5-multidev{a} libarchive-zip-perl{a} libblas3{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcrypt20{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libidn2-dev{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libopenjp2-7{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libpng16-16t64{a} libpsl-dev{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{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} libyaml-0-2{a} libzopfli1{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} pybuild-plugin-pyproject{a} python-is-python3{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-attr{a} python3-autocommand{a} python3-bioframe{a} python3-brotli{a} python3-build{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-exceptiongroup{a} python3-fonttools{a} python3-fs{a} python3-idna{a} python3-inflect{a} python3-iniconfig{a} python3-installer{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-platformdirs{a} python3-pluggy{a} python3-pyparsing{a} python3-pyproject-hooks{a} python3-pysam{a} python3-pytest{a} python3-pytz{a} python3-requests{a} python3-scipy{a} python3-setuptools{a} python3-standard-pipes{a} python3-sympy{a} python3-tk{a} python3-typeguard{a} python3-typing-extensions{a} python3-ufolib2{a} python3-urllib3{a} python3-wheel{a} python3-yaml{a} python3-zipp{a} python3-zopfli{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} python3.13-tk{a} readline-common{a} sensible-utils{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: bzip2-doc curl isympy-common javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgpg-error-l10n libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix python3-bottleneck python3-bs4 python3-cssselect python3-html5lib python3-jinja2 python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pooch python3-pygments python3-tables python3-tz shared-mime-info wget xdg-user-dirs 0 packages upgraded, 233 newly installed, 0 to remove and 0 not upgraded. Need to get 139 MB of archives. After unpacking 580 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.7.1-2 [93.3 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libpython3.13-minimal arm64 3.13.5-2 [856 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 python3.13-minimal arm64 3.13.5-2 [2003 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.13.5-1 [27.2 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 tzdata all 2025b-4 [260 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpython3.13-stdlib arm64 3.13.5-2 [1892 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 python3.13 arm64 3.13.5-2 [757 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.13.5-1 [10.2 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.13.5-1 [28.2 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.1-4 [104 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.1-4 [1819 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 openssl arm64 3.5.1-1 [1457 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 ca-certificates all 20250419 [162 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-2 [241 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.41-5 [93.8 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 architecture-properties arm64 0.2.6 [2336 B] Get: 33 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-8 [285 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-4 [862 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [984 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.48-1 [274 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-2.3 [318 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-2.3 [387 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 libxft2 arm64 2.3.6-1+b4 [51.6 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+24 [217 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libxss1 arm64 1:1.2.3-1+b3 [17.1 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libtk8.6 arm64 8.6.16-1 [741 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-8 [537 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 blt arm64 2.5.3+dfsg-8 [5984 B] Get: 59 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.2-3+b2 [24.9 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 comerr-dev arm64 2.1-1.47.2-3+b2 [56.9 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 cython3 arm64 3.0.11+dfsg-2+b1 [2255 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-4 [539 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 68 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-2 [629 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-2 [1611 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.2 [919 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20250414 [116 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 fonts-lyx all 2.4.3-1 [190 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 81 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 libidn2-0 arm64 2.3.8-2 [107 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libgnutls30t64 arm64 3.8.9-3 [1375 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.64.0-1.1 [71.4 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libnghttp3-9 arm64 1.8.0-1 [63.2 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libngtcp2-16 arm64 1.11.0-1 [121 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls8 arm64 1.11.0-1 [28.2 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.14.1-2 [353 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libunbound8 arm64 1.22.0-2 [553 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 libgnutls-dane0t64 arm64 3.8.9-3 [453 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libgnutls-openssl27t64 arm64 3.8.9-3 [453 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 libidn2-dev arm64 2.3.8-2 [101 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB] Get: 113 http://deb.debian.org/debian trixie/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 libgnutls28-dev arm64 3.8.9-3 [1416 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 121 http://deb.debian.org/debian trixie/main arm64 libnghttp2-dev arm64 1.64.0-1.1 [112 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 libnghttp3-dev arm64 1.8.0-1 [89.4 kB] Get: 123 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.11.0-1 [33.9 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 libngtcp2-dev arm64 1.11.0-1 [174 kB] Get: 125 http://deb.debian.org/debian trixie/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 126 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 127 http://deb.debian.org/debian trixie/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 libssl-dev arm64 3.5.1-1 [3385 kB] Get: 129 http://deb.debian.org/debian trixie/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 130 http://deb.debian.org/debian trixie/main arm64 libzstd-dev arm64 1.5.7+dfsg-1 [335 kB] Get: 131 http://deb.debian.org/debian trixie/main arm64 libcurl4-gnutls-dev arm64 8.14.1-2 [489 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 133 http://deb.debian.org/debian trixie/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.7.1-2 [145 kB] Get: 135 http://deb.debian.org/debian trixie/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 136 http://deb.debian.org/debian trixie/main arm64 libgpg-error0 arm64 1.51-4 [78.5 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 libgcrypt20 arm64 1.11.0-7 [742 kB] Get: 138 http://deb.debian.org/debian trixie/main arm64 libglib2.0-0t64 arm64 2.84.3-1 [1426 kB] Get: 139 http://deb.debian.org/debian trixie/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 140 http://deb.debian.org/debian trixie/main arm64 libharfbuzz0b arm64 10.2.0-1+b1 [442 kB] Get: 141 http://deb.debian.org/debian trixie/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 142 http://deb.debian.org/debian trixie/main arm64 libhts3t64 arm64 1.21+ds-1 [426 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 liblzma-dev arm64 5.8.1-1 [344 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 libhts-dev arm64 1.21+ds-1 [1658 kB] Get: 145 http://deb.debian.org/debian trixie/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB] Get: 146 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 147 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Get: 148 http://deb.debian.org/debian trixie/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 149 http://deb.debian.org/debian trixie/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 150 http://deb.debian.org/debian trixie/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 151 http://deb.debian.org/debian trixie/main arm64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 152 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 153 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 154 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.3-2 [190 kB] Get: 155 http://deb.debian.org/debian trixie/main arm64 libpython3.13 arm64 3.13.5-2 [1976 kB] Get: 156 http://deb.debian.org/debian trixie/main arm64 libpython3.13-dev arm64 3.13.5-2 [4890 kB] Get: 157 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.13.5-1 [10.4 kB] Get: 158 http://deb.debian.org/debian trixie/main arm64 libpython3-all-dev arm64 3.13.5-1 [1068 B] Get: 159 http://deb.debian.org/debian trixie/main arm64 libqhull-r8.0 arm64 2020.2-6+b2 [229 kB] Get: 160 http://deb.debian.org/debian trixie/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB] Get: 161 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 162 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 163 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.7.0-3 [325 kB] Get: 164 http://deb.debian.org/debian trixie/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB] Get: 165 http://deb.debian.org/debian trixie/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB] Get: 166 http://deb.debian.org/debian trixie/main arm64 libxslt1.1 arm64 1.1.35-1.2 [221 kB] Get: 167 http://deb.debian.org/debian trixie/main arm64 libyaml-0-2 arm64 0.2.5-2 [49.2 kB] Get: 168 http://deb.debian.org/debian trixie/main arm64 libzopfli1 arm64 1.0.3-3 [95.2 kB] Get: 169 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 170 http://deb.debian.org/debian trixie/main arm64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 171 http://deb.debian.org/debian trixie/main arm64 python3-wheel all 0.46.1-2 [21.7 kB] Get: 172 http://deb.debian.org/debian trixie/main arm64 python3-build all 1.2.2-2 [36.1 kB] Get: 173 http://deb.debian.org/debian trixie/main arm64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 174 http://deb.debian.org/debian trixie/main arm64 pybuild-plugin-pyproject all 6.20250414 [11.8 kB] Get: 175 http://deb.debian.org/debian trixie/main arm64 python-is-python3 all 3.13.3-1 [3204 B] Get: 176 http://deb.debian.org/debian trixie/main arm64 python-matplotlib-data all 3.10.1+dfsg1-4 [2737 kB] Get: 177 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.13.5-1 [1044 B] Get: 178 http://deb.debian.org/debian trixie/main arm64 python3.13-dev arm64 3.13.5-2 [505 kB] Get: 179 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.13.5-1 [26.1 kB] Get: 180 http://deb.debian.org/debian trixie/main arm64 python3-all-dev arm64 3.13.5-1 [1068 B] Get: 181 http://deb.debian.org/debian trixie/main arm64 python3-attr all 25.3.0-1 [69.5 kB] Get: 182 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 183 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.7.0-1 [67.4 kB] Get: 184 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 185 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 186 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 187 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 188 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 189 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 190 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 191 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 192 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 193 http://deb.debian.org/debian trixie/main arm64 python3-dateutil all 2.9.0-4 [79.4 kB] Get: 194 http://deb.debian.org/debian trixie/main arm64 python3-pil arm64 11.1.0-5+b1 [495 kB] Get: 195 http://deb.debian.org/debian trixie/main arm64 python3.13-tk arm64 3.13.5-2 [105 kB] Get: 196 http://deb.debian.org/debian trixie/main arm64 python3-tk arm64 3.13.5-1 [9604 B] Get: 197 http://deb.debian.org/debian trixie/main arm64 python3-pil.imagetk arm64 11.1.0-5+b1 [81.8 kB] Get: 198 http://deb.debian.org/debian trixie/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 199 http://deb.debian.org/debian trixie/main arm64 python3-contourpy arm64 1.3.1-1+b1 [190 kB] Get: 200 http://deb.debian.org/debian trixie/main arm64 python3-cycler all 0.12.1-1 [9496 B] Get: 201 http://deb.debian.org/debian trixie/main arm64 python3-brotli arm64 1.1.0-2+b7 [300 kB] Get: 202 http://deb.debian.org/debian trixie/main arm64 python3-platformdirs all 4.3.7-1 [16.6 kB] Get: 203 http://deb.debian.org/debian trixie/main arm64 python3-fs all 2.4.16-7 [95.2 kB] Get: 204 http://deb.debian.org/debian trixie/main arm64 python3-lxml arm64 5.4.0-1 [1139 kB] Get: 205 http://deb.debian.org/debian trixie/main arm64 python3-lz4 arm64 4.4.0+dfsg-2 [25.3 kB] Get: 206 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 207 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.15.3-1 [14.9 MB] Get: 208 http://deb.debian.org/debian trixie/main arm64 python3-mpmath all 1.3.0-1 [419 kB] Get: 209 http://deb.debian.org/debian trixie/main arm64 python3-sympy all 1.13.3-5 [4148 kB] Get: 210 http://deb.debian.org/debian trixie/main arm64 python3-ufolib2 all 0.17.1+dfsg1-1 [33.0 kB] Get: 211 http://deb.debian.org/debian trixie/main arm64 python3-zopfli arm64 0.2.3.post1-1 [10.2 kB] Get: 212 http://deb.debian.org/debian trixie/main arm64 unicode-data all 15.1.0-1 [8547 kB] Get: 213 http://deb.debian.org/debian trixie/main arm64 python3-fonttools arm64 4.57.0-1 [1366 kB] Get: 214 http://deb.debian.org/debian trixie/main arm64 python3-kiwisolver arm64 1.4.7-3+b1 [57.8 kB] Get: 215 http://deb.debian.org/debian trixie/main arm64 python3-matplotlib arm64 3.10.1+dfsg1-4 [23.7 MB] Get: 216 http://deb.debian.org/debian trixie/main arm64 python3-pytz all 2025.2-3 [152 kB] Get: 217 http://deb.debian.org/debian trixie/main arm64 python3-pandas-lib arm64 2.2.3+dfsg-9 [3877 kB] Get: 218 http://deb.debian.org/debian trixie/main arm64 python3-pandas all 2.2.3+dfsg-9 [3097 kB] Get: 219 http://deb.debian.org/debian trixie/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 220 http://deb.debian.org/debian trixie/main arm64 python3-charset-normalizer arm64 3.4.2-1 [120 kB] Get: 221 http://deb.debian.org/debian trixie/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 222 http://deb.debian.org/debian trixie/main arm64 python3-urllib3 all 2.3.0-3 [115 kB] Get: 223 http://deb.debian.org/debian trixie/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 224 http://deb.debian.org/debian trixie/main arm64 python3-requests all 2.32.3+dfsg-5 [72.2 kB] Get: 225 http://deb.debian.org/debian trixie/main arm64 python3-bioframe all 0.4.1-2 [71.9 kB] Get: 226 http://deb.debian.org/debian trixie/main arm64 python3-click all 8.2.0+0.really.8.1.8-1 [95.4 kB] Get: 227 http://deb.debian.org/debian trixie/main arm64 python3-exceptiongroup all 1.2.2-1 [19.7 kB] Get: 228 http://deb.debian.org/debian trixie/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 229 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 230 http://deb.debian.org/debian trixie/main arm64 python3-pysam arm64 0.23.0+ds-1+b1 [3417 kB] Get: 231 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 232 http://deb.debian.org/debian trixie/main arm64 python3-standard-pipes all 3.13.0-5 [7376 B] Get: 233 http://deb.debian.org/debian trixie/main arm64 python3-yaml arm64 6.0.2-1+b2 [122 kB] Fetched 139 MB in 1s (232 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 19964 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.5-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.5-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.5-2_arm64.deb ... Unpacking python3.13-minimal (3.13.5-2) ... Setting up libpython3.13-minimal:arm64 (3.13.5-2) ... Setting up libexpat1:arm64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.5-2) ... 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 ... 20298 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.5-1_arm64.deb ... Unpacking python3-minimal (3.13.5-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-4_all.deb ... Unpacking tzdata (2025b-4) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.4.8-2_arm64.deb ... Unpacking libffi8:arm64 (3.4.8-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.5-2_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.5-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.5-2_arm64.deb ... Unpacking python3.13 (3.13.5-2) ... 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Selecting previously unselected package python3-numpy-dev:arm64. Preparing to unpack .../001-python3-numpy-dev_1%3a2.2.4+ds-1_arm64.deb ... Unpacking python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Selecting previously unselected package libblas3:arm64. Preparing to unpack .../002-libblas3_3.12.1-4_arm64.deb ... Unpacking libblas3:arm64 (3.12.1-4) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../003-libgfortran5_14.2.0-19_arm64.deb ... Unpacking libgfortran5:arm64 (14.2.0-19) ... Selecting previously unselected package liblapack3:arm64. Preparing to unpack .../004-liblapack3_3.12.1-4_arm64.deb ... Unpacking liblapack3:arm64 (3.12.1-4) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../005-python3-numpy_1%3a2.2.4+ds-1_arm64.deb ... Unpacking python3-numpy (1:2.2.4+ds-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../006-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package openssl. Preparing to unpack .../007-openssl_3.5.1-1_arm64.deb ... Unpacking openssl (3.5.1-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../008-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../009-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../010-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../011-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../012-gettext-base_0.23.1-2_arm64.deb ... Unpacking gettext-base (0.23.1-2) ... 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Current default time zone: 'Etc/UTC' Local time is now: Wed Jul 30 05:32:09 UTC 2025. Universal Time is now: Wed Jul 30 05:32:09 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... Setting up autotools-dev (20240727.1) ... Setting up libblas3:arm64 (3.12.1-4) ... 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 libunbound8:arm64 (1.22.0-2) ... Setting up libpkgconf3:arm64 (1.8.1-4) ... Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-3) ... Setting up libexpat1-dev:arm64 (2.7.1-2) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-4) ... Setting up libzopfli1 (1.0.3-3) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libfribidi0:arm64 (1.0.16-1) ... Setting up libimagequant0:arm64 (2.18.0-1+b2) ... Setting up comerr-dev:arm64 (2.1-1.47.2-3+b2) ... Setting up libunistring5:arm64 (1.3-2) ... 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Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up liblapack3:arm64 (3.12.1-4) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-2) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ... Setting up nettle-dev:arm64 (3.10.1-1) ... Setting up libxrender1:arm64 (1:0.9.12-1) ... Setting up libtool (2.5.4-4) ... Setting up fontconfig-config (2.15.0-2.3) ... Setting up libwebpdemux2:arm64 (1.5.0-0.1) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libidn2-0:arm64 (2.3.8-2) ... Setting up libngtcp2-dev:arm64 (1.11.0-1) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:arm64 (2.84.3-1) ... No schema files found: doing nothing. Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.8-2) ... Setting up libjs-sphinxdoc (8.1.3-5) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up libxslt1.1:arm64 (1.1.35-1.2) ... Setting up libharfbuzz0b:arm64 (10.2.0-1+b1) ... Setting up libxss1:arm64 (1:1.2.3-1+b3) ... Setting up libfontconfig1:arm64 (2.15.0-2.3) ... Setting up libpython3.13-stdlib:arm64 (3.13.5-2) ... Setting up libp11-kit-dev:arm64 (0.25.5-3) ... 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Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up libhts3t64:arm64 (1.21+ds-1) ... Setting up python3-build (1.2.2-2) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-all-dev (3.13.5-1) ... Setting up python3-pysam (0.23.0+ds-1+b1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up pybuild-plugin-pyproject (6.20250414) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up libcurl4-gnutls-dev:arm64 (8.14.1-2) ... Setting up libhts-dev:arm64 (1.21+ds-1) ... Setting up python3-fonttools (4.57.0-1) ... Setting up python3-ufolib2 (0.17.1+dfsg1-1) ... Setting up python3-matplotlib (3.10.1+dfsg1-4) ... Setting up python3-bioframe (0.4.1-2) ... Processing triggers for libc-bin (2.41-11) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 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/pairtools-1.1.3/ && 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 > ../pairtools_1.1.3-1_source.changes dpkg-buildpackage: info: source package pairtools dpkg-buildpackage: info: source version 1.1.3-1 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 --with numpy3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' rm -f pairtools/lib/*.c pairtools/lib/regions.cpp make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with numpy3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:129: Building wheel for python3.13 with "build" module I: pybuild base:311: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools * Building wheel... /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/dedup_cython.pyx tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/parse_pysam.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/regions.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling pairtools/lib/regions.pyx because it changed. Compiling pairtools/lib/parse_pysam.pyx because it changed. Compiling pairtools/lib/dedup_cython.pyx because it changed. [1/3] Cythonizing pairtools/lib/dedup_cython.pyx [2/3] Cythonizing pairtools/lib/parse_pysam.pyx [3/3] Cythonizing pairtools/lib/regions.pyx /usr/lib/python3/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated !! ******************************************************************************** Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). By 2026-Feb-18, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! corresp(dist, value, root_dir) /usr/lib/python3/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! dist._finalize_license_expression() /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running bdist_wheel running build running build_py creating build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/_logging.py -> build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/__main__.py -> build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools creating build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/stats.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/select.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/scaling.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/restrict.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/phase.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/pairsio.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/pairsam_format.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/headerops.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/filterbycov.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/fileio.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/dedup.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib creating build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/select.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/stats.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/split.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/sort.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/scaling.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/sample.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/restrict.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/phase.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/parse2.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/parse.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/merge.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/markasdup.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/header.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/flip.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/filterbycov.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/dedup.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli running egg_info creating pairtools.egg-info writing pairtools.egg-info/PKG-INFO writing dependency_links to pairtools.egg-info/dependency_links.txt writing entry points to pairtools.egg-info/entry_points.txt writing requirements to pairtools.egg-info/requires.txt writing top-level names to pairtools.egg-info/top_level.txt writing manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'doc/_build' no previously-included directories found matching 'doc/_templates' warning: no previously-included files matching '__pycache__/*' found anywhere in distribution warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.pyd' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '.git*' found anywhere in distribution warning: no previously-included files matching '.deps/*' found anywhere in distribution warning: no previously-included files matching '.DS_Store' found anywhere in distribution adding license file 'LICENSE' writing manifest file 'pairtools.egg-info/SOURCES.txt' copying pairtools/lib/dedup_cython.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse_pysam.pxd -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse_pysam.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/regions.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib running build_ext building 'pairtools.lib.regions' extension creating build/temp.linux-aarch64-cpython-313/pairtools/lib aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/regions.cpp -o build/temp.linux-aarch64-cpython-313/pairtools/lib/regions.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from pairtools/lib/regions.cpp:1302: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ pairtools/lib/regions.cpp:2610:21: warning: 'Py_UNICODE' is deprecated [-Wdeprecated-declarations] 2610 | Py_UNICODE *as_pyunicodes; | ^~~~~~~~~~~~~ In file included from /usr/include/python3.13/unicodeobject.h:1014, from /usr/include/python3.13/Python.h:79, from pairtools/lib/regions.cpp:30: /usr/include/python3.13/cpython/unicodeobject.h:10:37: note: declared here 10 | Py_DEPRECATED(3.13) typedef wchar_t Py_UNICODE; | ^~~~~~~~~~ aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/regions.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so building 'pairtools.lib.parse_pysam' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipairtools/lib -I/usr/lib/python3/dist-packages/pysam -I/usr/lib/python3/dist-packages/pysam/include/samtools -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/parse_pysam.c -o build/temp.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.o pairtools/lib/parse_pysam.c:3259:9: warning: 'Py_UNICODE' is deprecated [-Wdeprecated-declarations] 3259 | Py_UNICODE *as_pyunicodes; | ^~~~~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabixproxies.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcfaidx.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcsamfile.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcvcf.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcbcf.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabix.cpython-313-aarch64-linux-gnu.so building 'pairtools.lib.dedup_cython' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/dedup_cython.c -o build/temp.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from pairtools/lib/dedup_cython.c:1240: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so installing to build/bdist.linux-aarch64/wheel running install running install_lib creating build/bdist.linux-aarch64/wheel creating build/bdist.linux-aarch64/wheel/pairtools creating build/bdist.linux-aarch64/wheel/pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/dedup.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/filterbycov.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/flip.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/header.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/markasdup.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/merge.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/parse.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/parse2.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/phase.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/restrict.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/sample.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/scaling.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/sort.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/split.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/stats.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/select.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli creating build/bdist.linux-aarch64/wheel/pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.pxd -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/fileio.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/filterbycov.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/headerops.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/pairsam_format.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/pairsio.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/phase.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/restrict.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/scaling.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/select.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/stats.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools copying build/lib.linux-aarch64-cpython-313/pairtools/__main__.py -> build/bdist.linux-aarch64/wheel/./pairtools copying build/lib.linux-aarch64-cpython-313/pairtools/_logging.py -> build/bdist.linux-aarch64/wheel/./pairtools running install_egg_info Copying pairtools.egg-info to build/bdist.linux-aarch64/wheel/./pairtools-1.1.3.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/pairtools-1.1.3.dist-info/WHEEL creating '/build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/.tmp-7trsq4lt/pairtools-1.1.3-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'pairtools/__init__.py' adding 'pairtools/__main__.py' adding 'pairtools/_logging.py' adding 'pairtools/cli/__init__.py' adding 'pairtools/cli/dedup.py' adding 'pairtools/cli/filterbycov.py' adding 'pairtools/cli/flip.py' adding 'pairtools/cli/header.py' adding 'pairtools/cli/markasdup.py' adding 'pairtools/cli/merge.py' adding 'pairtools/cli/parse.py' adding 'pairtools/cli/parse2.py' adding 'pairtools/cli/phase.py' adding 'pairtools/cli/restrict.py' adding 'pairtools/cli/sample.py' adding 'pairtools/cli/scaling.py' adding 'pairtools/cli/select.py' adding 'pairtools/cli/sort.py' adding 'pairtools/cli/split.py' adding 'pairtools/cli/stats.py' adding 'pairtools/lib/__init__.py' adding 'pairtools/lib/dedup.py' adding 'pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/dedup_cython.pyx' adding 'pairtools/lib/fileio.py' adding 'pairtools/lib/filterbycov.py' adding 'pairtools/lib/headerops.py' adding 'pairtools/lib/pairsam_format.py' adding 'pairtools/lib/pairsio.py' adding 'pairtools/lib/parse.py' adding 'pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/parse_pysam.pxd' adding 'pairtools/lib/parse_pysam.pyx' adding 'pairtools/lib/phase.py' adding 'pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/regions.pyx' adding 'pairtools/lib/restrict.py' adding 'pairtools/lib/scaling.py' adding 'pairtools/lib/select.py' adding 'pairtools/lib/stats.py' adding 'pairtools-1.1.3.dist-info/licenses/LICENSE' adding 'pairtools-1.1.3.dist-info/METADATA' adding 'pairtools-1.1.3.dist-info/WHEEL' adding 'pairtools-1.1.3.dist-info/entry_points.txt' adding 'pairtools-1.1.3.dist-info/top_level.txt' adding 'pairtools-1.1.3.dist-info/RECORD' removing build/bdist.linux-aarch64/wheel Successfully built pairtools-1.1.3-cp313-cp313-linux_aarch64.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' dh_auto_test -- --system=custom --test-args="export CURPY={interpreter}; \ cd {build_dir} && {interpreter} -m pytest -v -k 'not test_dedup and not test_mock_pysam_parse2_single_end'" I: pybuild base:311: export CURPY=python3.13; cd /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build && python3.13 -m pytest -v -k 'not test_dedup and not test_mock_pysam_parse2_single_end' ============================= test session starts ============================== platform linux -- Python 3.13.5, pytest-8.3.5, pluggy-1.5.0 -- /usr/bin/python3.13 cachedir: .pytest_cache rootdir: /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build configfile: pytest.ini testpaths: tests plugins: typeguard-4.4.2 collecting ... collected 34 items / 3 deselected / 31 selected tests/test_filterbycov.py::test_mock_pairs PASSED [ 3%] tests/test_flip.py::test_flip PASSED [ 6%] tests/test_header.py::test_generate PASSED [ 9%] tests/test_headerops.py::test_make_standard_header PASSED [ 12%] tests/test_headerops.py::test_samheaderops PASSED [ 16%] tests/test_headerops.py::test_merge_pairheaders PASSED [ 19%] tests/test_headerops.py::test_merge_different_pairheaders PASSED [ 22%] tests/test_headerops.py::test_force_merge_pairheaders PASSED [ 25%] tests/test_headerops.py::test_merge_samheaders PASSED [ 29%] tests/test_headerops.py::test_merge_headers PASSED [ 32%] tests/test_markasdup.py::test_mock_pairsam PASSED [ 35%] tests/test_merge.py::test_mock_pairsam PASSED [ 38%] tests/test_parse.py::test_python_version PASSED [ 41%] tests/test_parse.py::test_mock_pysam PASSED [ 45%] tests/test_parse.py::test_mock_pysam_parse_all PASSED [ 48%] tests/test_parse2.py::test_mock_pysam_parse2_read PASSED [ 51%] tests/test_parse2.py::test_mock_pysam_parse2_pair PASSED [ 54%] tests/test_restrict.py::test_restrict PASSED [ 58%] tests/test_scaling.py::test_scaling PASSED [ 61%] tests/test_select.py::test_preserve PASSED [ 64%] tests/test_select.py::test_equal PASSED [ 67%] tests/test_select.py::test_csv PASSED [ 70%] tests/test_select.py::test_wildcard PASSED [ 74%] tests/test_select.py::test_regex PASSED [ 77%] tests/test_select.py::test_chrom_subset PASSED [ 80%] tests/test_select.py::test_remove_columns PASSED [ 83%] tests/test_sort.py::test_mock_pairsam PASSED [ 87%] tests/test_split.py::test_split PASSED [ 90%] tests/test_stats.py::test_mock_pairsam PASSED [ 93%] tests/test_stats.py::test_merge_stats PASSED [ 96%] tests/test_stats.py::test_find_dist_freq_convergence_distance PASSED [100%] =============================== warnings summary =============================== pairtools/lib/fileio.py:2 /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/fileio.py:2: DeprecationWarning: pipes was removed in Python 3.13. Please be aware that you are currently NOT using standard 'pipes', but instead a separately installed 'standard-pipes'. import pipes tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:466: RuntimeWarning: divide by zero encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:474: RuntimeWarning: divide by zero encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:410: RuntimeWarning: invalid value encountered in divide np.abs(dist_freqs_by_strands[strands] - avg_freq_all_strands) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:466: RuntimeWarning: invalid value encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:474: RuntimeWarning: invalid value encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ================ 31 passed, 3 deselected, 6 warnings in 42.34s ================= make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir debian/rules execute_after_dh_auto_install make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' find debian/ -name '*.stats' -delete make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/python3-pairtools/usr/bin/pairtools dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=pybuild debian/rules override_dh_numpy3 make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' dh_numpy3 -p python3-pairtools Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Depends field of package python3-pairtools-examples: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pairtools-dbgsym' in '../python3-pairtools-dbgsym_1.1.3-1_arm64.deb'. dpkg-deb: building package 'python3-pairtools' in '../python3-pairtools_1.1.3-1_arm64.deb'. dpkg-deb: building package 'python3-pairtools-examples' in '../python3-pairtools-examples_1.1.3-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../pairtools_1.1.3-1_arm64.buildinfo dpkg-genchanges --build=binary -O../pairtools_1.1.3-1_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/828143 and its subdirectories I: Current time: Tue Jul 29 17:34:05 -12 2025 I: pbuilder-time-stamp: 1753853645 Wed Jul 30 05:34:07 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink03-arm64.debian.net. Wed Jul 30 05:34:07 UTC 2025 I: Preparing to do remote build '2' on codethink03-arm64.debian.net. Wed Jul 30 05:34:07 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Wed Jul 30 05:34:07 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-C5eyNM' ==================================================================================== Tue Sep 1 11:57:08 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "2 pairtools trixie /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk 1.1.3-1" as arguments. Tue Sep 1 11:57:08 UTC 2026 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-FNmTpsl9" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Tue Sep 1 11:57:08 UTC 2026 I: Downloading source for trixie/pairtools=1.1.3-1 Reading package lists... NOTICE: 'pairtools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pairtools.git Please use: git clone https://salsa.debian.org/med-team/pairtools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1430 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (dsc) [2494 B] Get:2 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (tar) [1420 kB] Get:3 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (diff) [7660 B] Fetched 1430 kB in 0s (39.4 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'pairtools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pairtools.git Please use: git clone https://salsa.debian.org/med-team/pairtools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1430 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (dsc) [2494 B] Get:2 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (tar) [1420 kB] Get:3 http://deb.debian.org/debian trixie/main pairtools 1.1.3-1 (diff) [7660 B] Fetched 1430 kB in 0s (39.4 MB/s) Download complete and in download only mode ============================================================================= Re-Building pairtools in trixie on arm64 on codethink03-arm64 now. Date: Tue Sep 1 12:57:09 BST 2026 Date UTC: Tue Sep 1 11:57:09 UTC 2026 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pbuilderrc_kze7 + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' pairtools = debian-installer -o pairtools = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' pairtools = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pbuilderrc_kze7 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b2 --logfile b2/build.log pairtools_1.1.3-1.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Wed Sep 2 01:57:09 +14 2026 I: pbuilder-time-stamp: 1788263829 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 [pairtools_1.1.3-1.dsc] I: copying [./pairtools_1.1.3.orig.tar.gz] I: copying [./pairtools_1.1.3-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./pairtools_1.1.3-1.dsc: no acceptable signature found dpkg-source: info: extracting pairtools in pairtools-1.1.3 dpkg-source: info: unpacking pairtools_1.1.3.orig.tar.gz dpkg-source: info: unpacking pairtools_1.1.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying makefile dpkg-source: info: applying fix-spelling dpkg-source: info: applying tests-to-python3 dpkg-source: info: applying fix-pysam-ftbfs.patch dpkg-source: info: applying do-not-run-coverage.patch dpkg-source: info: applying no_install_depends_cython.patch dpkg-source: info: applying syntax_warning.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/558025/tmp/hooks/D01_modify_environment starting debug: Running on codethink03-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Sep 1 11:57 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/558025/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/558025/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=ba464c9cfc2f40968c7e1308a28ea5e6 LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=558025 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pbuilderrc_kze7 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b2 --logfile b2/build.log pairtools_1.1.3-1.dsc' SUDO_GID=109 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/558025/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, architecture-is-64-bit, python3-all-dev, pybuild-plugin-pyproject, cython3, python-is-python3, python3-setuptools, python3-bioframe, python3-click, python3-exceptiongroup, python3-numpy, python3-pandas, python3-pysam (>= 0.20.0+ds-3~), python3-pytest, python3-standard-pipes, python3-scipy, libhts-dev, python3-yaml dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19964 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python-is-python3; however: Package python-is-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-bioframe; however: Package python3-bioframe is not installed. pbuilder-satisfydepends-dummy depends on python3-click; however: Package python3-click is not installed. pbuilder-satisfydepends-dummy depends on python3-exceptiongroup; however: Package python3-exceptiongroup is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam (>= 0.20.0+ds-3~); however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-standard-pipes; however: Package python3-standard-pipes is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml 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: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} ca-certificates{a} comerr-dev{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} krb5-multidev{a} libarchive-zip-perl{a} libblas3{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcrypt20{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libidn2-dev{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libopenjp2-7{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libpng16-16t64{a} libpsl-dev{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{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} libyaml-0-2{a} libzopfli1{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} pybuild-plugin-pyproject{a} python-is-python3{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-attr{a} python3-autocommand{a} python3-bioframe{a} python3-brotli{a} python3-build{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-exceptiongroup{a} python3-fonttools{a} python3-fs{a} python3-idna{a} python3-inflect{a} python3-iniconfig{a} python3-installer{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-platformdirs{a} python3-pluggy{a} python3-pyparsing{a} python3-pyproject-hooks{a} python3-pysam{a} python3-pytest{a} python3-pytz{a} python3-requests{a} python3-scipy{a} python3-setuptools{a} python3-standard-pipes{a} python3-sympy{a} python3-tk{a} python3-typeguard{a} python3-typing-extensions{a} python3-ufolib2{a} python3-urllib3{a} python3-wheel{a} python3-yaml{a} python3-zipp{a} python3-zopfli{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} python3.13-tk{a} readline-common{a} sensible-utils{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: bzip2-doc curl isympy-common javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgpg-error-l10n libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix python3-bottleneck python3-bs4 python3-cssselect python3-html5lib python3-jinja2 python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pooch python3-pygments python3-tables python3-tz shared-mime-info wget xdg-user-dirs 0 packages upgraded, 233 newly installed, 0 to remove and 0 not upgraded. Need to get 139 MB of archives. After unpacking 580 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.7.1-2 [93.3 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libpython3.13-minimal arm64 3.13.5-2 [856 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 python3.13-minimal arm64 3.13.5-2 [2003 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.13.5-1 [27.2 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 tzdata all 2025b-4 [260 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpython3.13-stdlib arm64 3.13.5-2 [1892 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 python3.13 arm64 3.13.5-2 [757 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.13.5-1 [10.2 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.13.5-1 [28.2 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.1-4 [104 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.1-4 [1819 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 openssl arm64 3.5.1-1 [1457 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 ca-certificates all 20250419 [162 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-2 [241 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.41-5 [93.8 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 architecture-properties arm64 0.2.6 [2336 B] Get: 33 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-8 [285 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-4 [862 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [984 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.48-1 [274 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-2.3 [318 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-2.3 [387 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 libxft2 arm64 2.3.6-1+b4 [51.6 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+24 [217 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libxss1 arm64 1:1.2.3-1+b3 [17.1 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libtk8.6 arm64 8.6.16-1 [741 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-8 [537 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 blt arm64 2.5.3+dfsg-8 [5984 B] Get: 59 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.2-3+b2 [24.9 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 comerr-dev arm64 2.1-1.47.2-3+b2 [56.9 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 cython3 arm64 3.0.11+dfsg-2+b1 [2255 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-4 [539 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 68 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-2 [629 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-2 [1611 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.2 [919 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20250414 [116 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 fonts-lyx all 2.4.3-1 [190 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 81 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 libidn2-0 arm64 2.3.8-2 [107 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libgnutls30t64 arm64 3.8.9-3 [1375 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.64.0-1.1 [71.4 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libnghttp3-9 arm64 1.8.0-1 [63.2 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libngtcp2-16 arm64 1.11.0-1 [121 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls8 arm64 1.11.0-1 [28.2 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.14.1-2 [353 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libunbound8 arm64 1.22.0-2 [553 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 libgnutls-dane0t64 arm64 3.8.9-3 [453 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libgnutls-openssl27t64 arm64 3.8.9-3 [453 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 libidn2-dev arm64 2.3.8-2 [101 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB] Get: 113 http://deb.debian.org/debian trixie/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 libgnutls28-dev arm64 3.8.9-3 [1416 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 121 http://deb.debian.org/debian trixie/main arm64 libnghttp2-dev arm64 1.64.0-1.1 [112 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 libnghttp3-dev arm64 1.8.0-1 [89.4 kB] Get: 123 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.11.0-1 [33.9 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 libngtcp2-dev arm64 1.11.0-1 [174 kB] Get: 125 http://deb.debian.org/debian trixie/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 126 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 127 http://deb.debian.org/debian trixie/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 libssl-dev arm64 3.5.1-1 [3385 kB] Get: 129 http://deb.debian.org/debian trixie/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 130 http://deb.debian.org/debian trixie/main arm64 libzstd-dev arm64 1.5.7+dfsg-1 [335 kB] Get: 131 http://deb.debian.org/debian trixie/main arm64 libcurl4-gnutls-dev arm64 8.14.1-2 [489 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 133 http://deb.debian.org/debian trixie/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.7.1-2 [145 kB] Get: 135 http://deb.debian.org/debian trixie/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 136 http://deb.debian.org/debian trixie/main arm64 libgpg-error0 arm64 1.51-4 [78.5 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 libgcrypt20 arm64 1.11.0-7 [742 kB] Get: 138 http://deb.debian.org/debian trixie/main arm64 libglib2.0-0t64 arm64 2.84.3-1 [1426 kB] Get: 139 http://deb.debian.org/debian trixie/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 140 http://deb.debian.org/debian trixie/main arm64 libharfbuzz0b arm64 10.2.0-1+b1 [442 kB] Get: 141 http://deb.debian.org/debian trixie/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 142 http://deb.debian.org/debian trixie/main arm64 libhts3t64 arm64 1.21+ds-1 [426 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 liblzma-dev arm64 5.8.1-1 [344 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 libhts-dev arm64 1.21+ds-1 [1658 kB] Get: 145 http://deb.debian.org/debian trixie/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB] Get: 146 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 147 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Get: 148 http://deb.debian.org/debian trixie/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 149 http://deb.debian.org/debian trixie/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 150 http://deb.debian.org/debian trixie/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 151 http://deb.debian.org/debian trixie/main arm64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 152 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 153 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 154 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.3-2 [190 kB] Get: 155 http://deb.debian.org/debian trixie/main arm64 libpython3.13 arm64 3.13.5-2 [1976 kB] Get: 156 http://deb.debian.org/debian trixie/main arm64 libpython3.13-dev arm64 3.13.5-2 [4890 kB] Get: 157 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.13.5-1 [10.4 kB] Get: 158 http://deb.debian.org/debian trixie/main arm64 libpython3-all-dev arm64 3.13.5-1 [1068 B] Get: 159 http://deb.debian.org/debian trixie/main arm64 libqhull-r8.0 arm64 2020.2-6+b2 [229 kB] Get: 160 http://deb.debian.org/debian trixie/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB] Get: 161 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 162 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 163 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.7.0-3 [325 kB] Get: 164 http://deb.debian.org/debian trixie/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB] Get: 165 http://deb.debian.org/debian trixie/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB] Get: 166 http://deb.debian.org/debian trixie/main arm64 libxslt1.1 arm64 1.1.35-1.2 [221 kB] Get: 167 http://deb.debian.org/debian trixie/main arm64 libyaml-0-2 arm64 0.2.5-2 [49.2 kB] Get: 168 http://deb.debian.org/debian trixie/main arm64 libzopfli1 arm64 1.0.3-3 [95.2 kB] Get: 169 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 170 http://deb.debian.org/debian trixie/main arm64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 171 http://deb.debian.org/debian trixie/main arm64 python3-wheel all 0.46.1-2 [21.7 kB] Get: 172 http://deb.debian.org/debian trixie/main arm64 python3-build all 1.2.2-2 [36.1 kB] Get: 173 http://deb.debian.org/debian trixie/main arm64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 174 http://deb.debian.org/debian trixie/main arm64 pybuild-plugin-pyproject all 6.20250414 [11.8 kB] Get: 175 http://deb.debian.org/debian trixie/main arm64 python-is-python3 all 3.13.3-1 [3204 B] Get: 176 http://deb.debian.org/debian trixie/main arm64 python-matplotlib-data all 3.10.1+dfsg1-4 [2737 kB] Get: 177 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.13.5-1 [1044 B] Get: 178 http://deb.debian.org/debian trixie/main arm64 python3.13-dev arm64 3.13.5-2 [505 kB] Get: 179 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.13.5-1 [26.1 kB] Get: 180 http://deb.debian.org/debian trixie/main arm64 python3-all-dev arm64 3.13.5-1 [1068 B] Get: 181 http://deb.debian.org/debian trixie/main arm64 python3-attr all 25.3.0-1 [69.5 kB] Get: 182 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 183 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.7.0-1 [67.4 kB] Get: 184 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 185 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 186 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 187 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 188 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 189 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 190 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 191 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 192 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 193 http://deb.debian.org/debian trixie/main arm64 python3-dateutil all 2.9.0-4 [79.4 kB] Get: 194 http://deb.debian.org/debian trixie/main arm64 python3-pil arm64 11.1.0-5+b1 [495 kB] Get: 195 http://deb.debian.org/debian trixie/main arm64 python3.13-tk arm64 3.13.5-2 [105 kB] Get: 196 http://deb.debian.org/debian trixie/main arm64 python3-tk arm64 3.13.5-1 [9604 B] Get: 197 http://deb.debian.org/debian trixie/main arm64 python3-pil.imagetk arm64 11.1.0-5+b1 [81.8 kB] Get: 198 http://deb.debian.org/debian trixie/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 199 http://deb.debian.org/debian trixie/main arm64 python3-contourpy arm64 1.3.1-1+b1 [190 kB] Get: 200 http://deb.debian.org/debian trixie/main arm64 python3-cycler all 0.12.1-1 [9496 B] Get: 201 http://deb.debian.org/debian trixie/main arm64 python3-brotli arm64 1.1.0-2+b7 [300 kB] Get: 202 http://deb.debian.org/debian trixie/main arm64 python3-platformdirs all 4.3.7-1 [16.6 kB] Get: 203 http://deb.debian.org/debian trixie/main arm64 python3-fs all 2.4.16-7 [95.2 kB] Get: 204 http://deb.debian.org/debian trixie/main arm64 python3-lxml arm64 5.4.0-1 [1139 kB] Get: 205 http://deb.debian.org/debian trixie/main arm64 python3-lz4 arm64 4.4.0+dfsg-2 [25.3 kB] Get: 206 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 207 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.15.3-1 [14.9 MB] Get: 208 http://deb.debian.org/debian trixie/main arm64 python3-mpmath all 1.3.0-1 [419 kB] Get: 209 http://deb.debian.org/debian trixie/main arm64 python3-sympy all 1.13.3-5 [4148 kB] Get: 210 http://deb.debian.org/debian trixie/main arm64 python3-ufolib2 all 0.17.1+dfsg1-1 [33.0 kB] Get: 211 http://deb.debian.org/debian trixie/main arm64 python3-zopfli arm64 0.2.3.post1-1 [10.2 kB] Get: 212 http://deb.debian.org/debian trixie/main arm64 unicode-data all 15.1.0-1 [8547 kB] Get: 213 http://deb.debian.org/debian trixie/main arm64 python3-fonttools arm64 4.57.0-1 [1366 kB] Get: 214 http://deb.debian.org/debian trixie/main arm64 python3-kiwisolver arm64 1.4.7-3+b1 [57.8 kB] Get: 215 http://deb.debian.org/debian trixie/main arm64 python3-matplotlib arm64 3.10.1+dfsg1-4 [23.7 MB] Get: 216 http://deb.debian.org/debian trixie/main arm64 python3-pytz all 2025.2-3 [152 kB] Get: 217 http://deb.debian.org/debian trixie/main arm64 python3-pandas-lib arm64 2.2.3+dfsg-9 [3877 kB] Get: 218 http://deb.debian.org/debian trixie/main arm64 python3-pandas all 2.2.3+dfsg-9 [3097 kB] Get: 219 http://deb.debian.org/debian trixie/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 220 http://deb.debian.org/debian trixie/main arm64 python3-charset-normalizer arm64 3.4.2-1 [120 kB] Get: 221 http://deb.debian.org/debian trixie/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 222 http://deb.debian.org/debian trixie/main arm64 python3-urllib3 all 2.3.0-3 [115 kB] Get: 223 http://deb.debian.org/debian trixie/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 224 http://deb.debian.org/debian trixie/main arm64 python3-requests all 2.32.3+dfsg-5 [72.2 kB] Get: 225 http://deb.debian.org/debian trixie/main arm64 python3-bioframe all 0.4.1-2 [71.9 kB] Get: 226 http://deb.debian.org/debian trixie/main arm64 python3-click all 8.2.0+0.really.8.1.8-1 [95.4 kB] Get: 227 http://deb.debian.org/debian trixie/main arm64 python3-exceptiongroup all 1.2.2-1 [19.7 kB] Get: 228 http://deb.debian.org/debian trixie/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 229 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 230 http://deb.debian.org/debian trixie/main arm64 python3-pysam arm64 0.23.0+ds-1+b1 [3417 kB] Get: 231 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 232 http://deb.debian.org/debian trixie/main arm64 python3-standard-pipes all 3.13.0-5 [7376 B] Get: 233 http://deb.debian.org/debian trixie/main arm64 python3-yaml arm64 6.0.2-1+b2 [122 kB] Fetched 139 MB in 1s (112 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 19964 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.5-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.5-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.5-2_arm64.deb ... Unpacking python3.13-minimal (3.13.5-2) ... Setting up libpython3.13-minimal:arm64 (3.13.5-2) ... Setting up libexpat1:arm64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.5-2) ... 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 ... 20298 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.5-1_arm64.deb ... Unpacking python3-minimal (3.13.5-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-4_all.deb ... Unpacking tzdata (2025b-4) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.4.8-2_arm64.deb ... Unpacking libffi8:arm64 (3.4.8-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.5-2_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.5-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.5-2_arm64.deb ... Unpacking python3.13 (3.13.5-2) ... 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Selecting previously unselected package python3-numpy-dev:arm64. Preparing to unpack .../001-python3-numpy-dev_1%3a2.2.4+ds-1_arm64.deb ... Unpacking python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Selecting previously unselected package libblas3:arm64. Preparing to unpack .../002-libblas3_3.12.1-4_arm64.deb ... Unpacking libblas3:arm64 (3.12.1-4) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../003-libgfortran5_14.2.0-19_arm64.deb ... Unpacking libgfortran5:arm64 (14.2.0-19) ... Selecting previously unselected package liblapack3:arm64. Preparing to unpack .../004-liblapack3_3.12.1-4_arm64.deb ... Unpacking liblapack3:arm64 (3.12.1-4) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../005-python3-numpy_1%3a2.2.4+ds-1_arm64.deb ... Unpacking python3-numpy (1:2.2.4+ds-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../006-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package openssl. Preparing to unpack .../007-openssl_3.5.1-1_arm64.deb ... Unpacking openssl (3.5.1-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../008-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../009-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../010-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../011-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../012-gettext-base_0.23.1-2_arm64.deb ... Unpacking gettext-base (0.23.1-2) ... 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Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up liblapack3:arm64 (3.12.1-4) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-2) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ... Setting up nettle-dev:arm64 (3.10.1-1) ... Setting up libxrender1:arm64 (1:0.9.12-1) ... Setting up libtool (2.5.4-4) ... Setting up fontconfig-config (2.15.0-2.3) ... Setting up libwebpdemux2:arm64 (1.5.0-0.1) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libidn2-0:arm64 (2.3.8-2) ... Setting up libngtcp2-dev:arm64 (1.11.0-1) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:arm64 (2.84.3-1) ... No schema files found: doing nothing. Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.8-2) ... Setting up libjs-sphinxdoc (8.1.3-5) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up libxslt1.1:arm64 (1.1.35-1.2) ... Setting up libharfbuzz0b:arm64 (10.2.0-1+b1) ... Setting up libxss1:arm64 (1:1.2.3-1+b3) ... Setting up libfontconfig1:arm64 (2.15.0-2.3) ... Setting up libpython3.13-stdlib:arm64 (3.13.5-2) ... Setting up libp11-kit-dev:arm64 (0.25.5-3) ... Setting up libpython3-stdlib:arm64 (3.13.5-1) ... Setting up libpython3.13:arm64 (3.13.5-2) ... Setting up libgnutls30t64:arm64 (3.8.9-3) ... Setting up libgnutls-openssl27t64:arm64 (3.8.9-3) ... Setting up libnghttp2-dev:arm64 (1.64.0-1.1) ... Setting up libxft2:arm64 (2.3.6-1+b4) ... Setting up python3.13 (3.13.5-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:arm64 (8.6.16-1) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up python3 (3.13.5-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-click (8.2.0+0.really.8.1.8-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3.13-tk (3.13.5-2) ... Setting up python3-platformdirs (4.3.7-1) ... Setting up python3-zopfli (0.2.3.post1-1) ... Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ... Setting up python3-fs (2.4.16-7) ... Setting up python3-decorator (5.2.1-2) ... Setting up python3-packaging (25.0-1) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up python3-pyproject-hooks (1.2.0-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up libgnutls-dane0t64:arm64 (3.8.9-3) ... Setting up python3-certifi (2025.1.31+ds-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libgssrpc4t64:arm64 (1.21.3-5) ... Setting up python3-brotli (1.1.0-2+b7) ... Setting up libraqm0:arm64 (0.10.2-1) ... Setting up libpython3.13-dev:arm64 (3.13.5-2) ... Setting up python3-cycler (0.12.1-1) ... Setting up python3-kiwisolver (1.4.7-3+b1) ... Setting up python3-idna (3.10-1) ... Setting up cython3 (3.0.11+dfsg-2+b1) ... Setting up python3-typing-extensions (4.13.2-1) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up python3-installer (0.7.0+dfsg1-3) ... Setting up python3-urllib3 (2.3.0-3) ... Setting up python3-pluggy (1.5.0-1) ... Setting up python3-lxml:arm64 (5.4.0-1) ... Setting up python3-exceptiongroup (1.2.2-1) ... Setting up python3-dateutil (2.9.0-4) ... Setting up python3-contourpy (1.3.1-1+b1) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python-is-python3 (3.13.3-1) ... Setting up libngtcp2-crypto-gnutls8:arm64 (1.11.0-1) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-5) ... Setting up dh-python (6.20250414) ... Setting up libgnutls28-dev:arm64 (3.8.9-3) ... Setting up python3-more-itertools (10.7.0-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-sympy (1.13.3-5) ... Setting up python3-attr (25.3.0-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-8) ... Setting up python3-scipy (1.15.3-1) ... Setting up libpython3-dev:arm64 (3.13.5-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-standard-pipes (3.13.0-5) ... Setting up libkdb5-10t64:arm64 (1.21.3-5) ... Setting up python3-lz4 (4.4.0+dfsg-2) ... Setting up python3-charset-normalizer (3.4.2-1) ... Setting up python3.13-dev (3.13.5-2) ... Setting up python3-pytest (8.3.5-2) ... Setting up blt (2.5.3+dfsg-8) ... Setting up python3-pandas-lib:arm64 (2.2.3+dfsg-9) ... Setting up python3-typeguard (4.4.2-1) ... Setting up libcurl3t64-gnutls:arm64 (8.14.1-2) ... Setting up python3-all (3.13.5-1) ... Setting up python3-yaml (6.0.2-1+b2) ... Setting up python3-tk:arm64 (3.13.5-1) ... Setting up debhelper (13.24.2) ... Setting up python3-pytz (2025.2-3) ... Setting up libngtcp2-crypto-gnutls-dev:arm64 (1.11.0-1) ... Setting up python3-wheel (0.46.1-2) ... Setting up python3-pil:arm64 (11.1.0-5+b1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-pandas (2.2.3+dfsg-9) ... Setting up python3-pil.imagetk:arm64 (11.1.0-5+b1) ... Setting up libpython3-all-dev:arm64 (3.13.5-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-dev (3.13.5-1) ... Setting up python3-requests (2.32.3+dfsg-5) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up libhts3t64:arm64 (1.21+ds-1) ... Setting up python3-build (1.2.2-2) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-all-dev (3.13.5-1) ... Setting up python3-pysam (0.23.0+ds-1+b1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up pybuild-plugin-pyproject (6.20250414) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up libcurl4-gnutls-dev:arm64 (8.14.1-2) ... Setting up libhts-dev:arm64 (1.21+ds-1) ... Setting up python3-fonttools (4.57.0-1) ... Setting up python3-ufolib2 (0.17.1+dfsg1-1) ... Setting up python3-matplotlib (3.10.1+dfsg1-4) ... Setting up python3-bioframe (0.4.1-2) ... Processing triggers for libc-bin (2.41-11) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/558025/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/558025/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/pairtools-1.1.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../pairtools_1.1.3-1_source.changes dpkg-buildpackage: info: source package pairtools dpkg-buildpackage: info: source version 1.1.3-1 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 --with numpy3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' rm -f pairtools/lib/*.c pairtools/lib/regions.cpp make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with numpy3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:129: Building wheel for python3.13 with "build" module I: pybuild base:311: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools * Building wheel... /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/dedup_cython.pyx tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/parse_pysam.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/pairtools-1.1.3/pairtools/lib/regions.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling pairtools/lib/regions.pyx because it changed. Compiling pairtools/lib/parse_pysam.pyx because it changed. Compiling pairtools/lib/dedup_cython.pyx because it changed. [1/3] Cythonizing pairtools/lib/dedup_cython.pyx [2/3] Cythonizing pairtools/lib/parse_pysam.pyx [3/3] Cythonizing pairtools/lib/regions.pyx /usr/lib/python3/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated !! ******************************************************************************** Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! corresp(dist, value, root_dir) /usr/lib/python3/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! dist._finalize_license_expression() /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running bdist_wheel running build running build_py creating build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/_logging.py -> build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/__main__.py -> build/lib.linux-aarch64-cpython-313/pairtools copying pairtools/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools creating build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/stats.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/select.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/scaling.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/restrict.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/phase.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/pairsio.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/pairsam_format.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/headerops.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/filterbycov.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/fileio.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/dedup.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools/lib creating build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/select.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/stats.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/split.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/sort.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/scaling.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/sample.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/restrict.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/phase.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/parse2.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/parse.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/merge.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/markasdup.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/header.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/flip.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/filterbycov.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/dedup.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli copying pairtools/cli/__init__.py -> build/lib.linux-aarch64-cpython-313/pairtools/cli running egg_info creating pairtools.egg-info writing pairtools.egg-info/PKG-INFO writing dependency_links to pairtools.egg-info/dependency_links.txt writing entry points to pairtools.egg-info/entry_points.txt writing requirements to pairtools.egg-info/requires.txt writing top-level names to pairtools.egg-info/top_level.txt writing manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest file 'pairtools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'doc/_build' no previously-included directories found matching 'doc/_templates' warning: no previously-included files matching '__pycache__/*' found anywhere in distribution warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.pyd' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '.git*' found anywhere in distribution warning: no previously-included files matching '.deps/*' found anywhere in distribution warning: no previously-included files matching '.DS_Store' found anywhere in distribution adding license file 'LICENSE' writing manifest file 'pairtools.egg-info/SOURCES.txt' copying pairtools/lib/dedup_cython.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse_pysam.pxd -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/parse_pysam.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib copying pairtools/lib/regions.pyx -> build/lib.linux-aarch64-cpython-313/pairtools/lib running build_ext building 'pairtools.lib.regions' extension creating build/temp.linux-aarch64-cpython-313/pairtools/lib aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/regions.cpp -o build/temp.linux-aarch64-cpython-313/pairtools/lib/regions.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from pairtools/lib/regions.cpp:1302: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ pairtools/lib/regions.cpp:2610:21: warning: 'Py_UNICODE' is deprecated [-Wdeprecated-declarations] 2610 | Py_UNICODE *as_pyunicodes; | ^~~~~~~~~~~~~ In file included from /usr/include/python3.13/unicodeobject.h:1014, from /usr/include/python3.13/Python.h:79, from pairtools/lib/regions.cpp:30: /usr/include/python3.13/cpython/unicodeobject.h:10:37: note: declared here 10 | Py_DEPRECATED(3.13) typedef wchar_t Py_UNICODE; | ^~~~~~~~~~ aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/regions.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so building 'pairtools.lib.parse_pysam' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipairtools/lib -I/usr/lib/python3/dist-packages/pysam -I/usr/lib/python3/dist-packages/pysam/include/samtools -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/parse_pysam.c -o build/temp.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.o pairtools/lib/parse_pysam.c:3259:9: warning: 'Py_UNICODE' is deprecated [-Wdeprecated-declarations] 3259 | Py_UNICODE *as_pyunicodes; | ^~~~~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabixproxies.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcfaidx.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcsamfile.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcvcf.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libcbcf.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/pysam/libctabix.cpython-313-aarch64-linux-gnu.so building 'pairtools.lib.dedup_cython' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -c pairtools/lib/dedup_cython.c -o build/temp.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from pairtools/lib/dedup_cython.c:1240: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/pairtools-1.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so installing to build/bdist.linux-aarch64/wheel running install running install_lib creating build/bdist.linux-aarch64/wheel creating build/bdist.linux-aarch64/wheel/pairtools creating build/bdist.linux-aarch64/wheel/pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/dedup.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/filterbycov.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/flip.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/header.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/markasdup.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/merge.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/parse.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/parse2.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/phase.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/restrict.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/sample.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/scaling.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/sort.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/split.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/stats.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli copying build/lib.linux-aarch64-cpython-313/pairtools/cli/select.py -> build/bdist.linux-aarch64/wheel/./pairtools/cli creating build/bdist.linux-aarch64/wheel/pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/regions.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse_pysam.pxd -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup_cython.pyx -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/dedup.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/fileio.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/filterbycov.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/headerops.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/pairsam_format.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/pairsio.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/parse.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/phase.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/restrict.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/scaling.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/select.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/lib/stats.py -> build/bdist.linux-aarch64/wheel/./pairtools/lib copying build/lib.linux-aarch64-cpython-313/pairtools/__init__.py -> build/bdist.linux-aarch64/wheel/./pairtools copying build/lib.linux-aarch64-cpython-313/pairtools/__main__.py -> build/bdist.linux-aarch64/wheel/./pairtools copying build/lib.linux-aarch64-cpython-313/pairtools/_logging.py -> build/bdist.linux-aarch64/wheel/./pairtools running install_egg_info Copying pairtools.egg-info to build/bdist.linux-aarch64/wheel/./pairtools-1.1.3.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/pairtools-1.1.3.dist-info/WHEEL creating '/build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/.tmp-o0t1cs93/pairtools-1.1.3-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'pairtools/__init__.py' adding 'pairtools/__main__.py' adding 'pairtools/_logging.py' adding 'pairtools/cli/__init__.py' adding 'pairtools/cli/dedup.py' adding 'pairtools/cli/filterbycov.py' adding 'pairtools/cli/flip.py' adding 'pairtools/cli/header.py' adding 'pairtools/cli/markasdup.py' adding 'pairtools/cli/merge.py' adding 'pairtools/cli/parse.py' adding 'pairtools/cli/parse2.py' adding 'pairtools/cli/phase.py' adding 'pairtools/cli/restrict.py' adding 'pairtools/cli/sample.py' adding 'pairtools/cli/scaling.py' adding 'pairtools/cli/select.py' adding 'pairtools/cli/sort.py' adding 'pairtools/cli/split.py' adding 'pairtools/cli/stats.py' adding 'pairtools/lib/__init__.py' adding 'pairtools/lib/dedup.py' adding 'pairtools/lib/dedup_cython.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/dedup_cython.pyx' adding 'pairtools/lib/fileio.py' adding 'pairtools/lib/filterbycov.py' adding 'pairtools/lib/headerops.py' adding 'pairtools/lib/pairsam_format.py' adding 'pairtools/lib/pairsio.py' adding 'pairtools/lib/parse.py' adding 'pairtools/lib/parse_pysam.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/parse_pysam.pxd' adding 'pairtools/lib/parse_pysam.pyx' adding 'pairtools/lib/phase.py' adding 'pairtools/lib/regions.cpython-313-aarch64-linux-gnu.so' adding 'pairtools/lib/regions.pyx' adding 'pairtools/lib/restrict.py' adding 'pairtools/lib/scaling.py' adding 'pairtools/lib/select.py' adding 'pairtools/lib/stats.py' adding 'pairtools-1.1.3.dist-info/licenses/LICENSE' adding 'pairtools-1.1.3.dist-info/METADATA' adding 'pairtools-1.1.3.dist-info/WHEEL' adding 'pairtools-1.1.3.dist-info/entry_points.txt' adding 'pairtools-1.1.3.dist-info/top_level.txt' adding 'pairtools-1.1.3.dist-info/RECORD' removing build/bdist.linux-aarch64/wheel Successfully built pairtools-1.1.3-cp313-cp313-linux_aarch64.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' dh_auto_test -- --system=custom --test-args="export CURPY={interpreter}; \ cd {build_dir} && {interpreter} -m pytest -v -k 'not test_dedup and not test_mock_pysam_parse2_single_end'" I: pybuild base:311: export CURPY=python3.13; cd /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build && python3.13 -m pytest -v -k 'not test_dedup and not test_mock_pysam_parse2_single_end' ============================= test session starts ============================== platform linux -- Python 3.13.5, pytest-8.3.5, pluggy-1.5.0 -- /usr/bin/python3.13 cachedir: .pytest_cache rootdir: /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build configfile: pytest.ini testpaths: tests plugins: typeguard-4.4.2 collecting ... collected 34 items / 3 deselected / 31 selected tests/test_filterbycov.py::test_mock_pairs PASSED [ 3%] tests/test_flip.py::test_flip PASSED [ 6%] tests/test_header.py::test_generate PASSED [ 9%] tests/test_headerops.py::test_make_standard_header PASSED [ 12%] tests/test_headerops.py::test_samheaderops PASSED [ 16%] tests/test_headerops.py::test_merge_pairheaders PASSED [ 19%] tests/test_headerops.py::test_merge_different_pairheaders PASSED [ 22%] tests/test_headerops.py::test_force_merge_pairheaders PASSED [ 25%] tests/test_headerops.py::test_merge_samheaders PASSED [ 29%] tests/test_headerops.py::test_merge_headers PASSED [ 32%] tests/test_markasdup.py::test_mock_pairsam PASSED [ 35%] tests/test_merge.py::test_mock_pairsam PASSED [ 38%] tests/test_parse.py::test_python_version PASSED [ 41%] tests/test_parse.py::test_mock_pysam PASSED [ 45%] tests/test_parse.py::test_mock_pysam_parse_all PASSED [ 48%] tests/test_parse2.py::test_mock_pysam_parse2_read PASSED [ 51%] tests/test_parse2.py::test_mock_pysam_parse2_pair PASSED [ 54%] tests/test_restrict.py::test_restrict PASSED [ 58%] tests/test_scaling.py::test_scaling PASSED [ 61%] tests/test_select.py::test_preserve PASSED [ 64%] tests/test_select.py::test_equal PASSED [ 67%] tests/test_select.py::test_csv PASSED [ 70%] tests/test_select.py::test_wildcard PASSED [ 74%] tests/test_select.py::test_regex PASSED [ 77%] tests/test_select.py::test_chrom_subset PASSED [ 80%] tests/test_select.py::test_remove_columns PASSED [ 83%] tests/test_sort.py::test_mock_pairsam PASSED [ 87%] tests/test_split.py::test_split PASSED [ 90%] tests/test_stats.py::test_mock_pairsam PASSED [ 93%] tests/test_stats.py::test_merge_stats PASSED [ 96%] tests/test_stats.py::test_find_dist_freq_convergence_distance PASSED [100%] =============================== warnings summary =============================== pairtools/lib/fileio.py:2 /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/fileio.py:2: DeprecationWarning: pipes was removed in Python 3.13. Please be aware that you are currently NOT using standard 'pipes', but instead a separately installed 'standard-pipes'. import pipes tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:466: RuntimeWarning: divide by zero encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:474: RuntimeWarning: divide by zero encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:410: RuntimeWarning: invalid value encountered in divide np.abs(dist_freqs_by_strands[strands] - avg_freq_all_strands) tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:466: RuntimeWarning: invalid value encountered in scalar divide strands: n_cis_pairs / norm_factor tests/test_stats.py::test_find_dist_freq_convergence_distance /build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/build/pairtools/lib/stats.py:474: RuntimeWarning: invalid value encountered in scalar divide sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ================ 31 passed, 3 deselected, 6 warnings in 49.41s ================= make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir debian/rules execute_after_dh_auto_install make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' find debian/ -name '*.stats' -delete make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/python3-pairtools/usr/bin/pairtools dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=pybuild debian/rules override_dh_numpy3 make[1]: Entering directory '/build/reproducible-path/pairtools-1.1.3' dh_numpy3 -p python3-pairtools Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Depends field of package python3-pairtools-examples: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pairtools-dbgsym' in '../python3-pairtools-dbgsym_1.1.3-1_arm64.deb'. dpkg-deb: building package 'python3-pairtools' in '../python3-pairtools_1.1.3-1_arm64.deb'. dpkg-deb: building package 'python3-pairtools-examples' in '../python3-pairtools-examples_1.1.3-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../pairtools_1.1.3-1_arm64.buildinfo dpkg-genchanges --build=binary -O../pairtools_1.1.3-1_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: user script /srv/workspace/pbuilder/558025/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/558025/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/558025 and its subdirectories I: Current time: Wed Sep 2 02:01:24 +14 2026 I: pbuilder-time-stamp: 1788264084 + false + set +x Tue Sep 1 12:01:24 UTC 2026 I: Signing ./b2/pairtools_1.1.3-1_arm64.buildinfo as pairtools_1.1.3-1_arm64.buildinfo.asc Tue Sep 1 12:01:24 UTC 2026 I: Signed ./b2/pairtools_1.1.3-1_arm64.buildinfo as ./b2/pairtools_1.1.3-1_arm64.buildinfo.asc Tue Sep 1 12:01:24 UTC 2026 - build #2 for pairtools/trixie/arm64 on codethink03-arm64 done. Starting cleanup. All cleanup done. Tue Sep 1 12:01:24 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-FNmTpsl9, removing. /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk: total 140 drwxr-xr-x 2 jenkins jenkins 4096 Jul 30 05:34 b1 drwxr-xr-x 2 jenkins jenkins 4096 Jul 30 05:38 b2 -rw-r--r-- 1 jenkins jenkins 2494 Feb 15 18:46 pairtools_1.1.3-1.dsc -rw------- 1 jenkins jenkins 124242 Jul 30 05:34 rbuildlog.u8gP2iU /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b1: total 3472 -rw-r--r-- 1 jenkins jenkins 120326 Jul 30 05:34 build.log -rw-r--r-- 1 jenkins jenkins 7660 Jul 30 05:34 pairtools_1.1.3-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2494 Jul 30 05:34 pairtools_1.1.3-1.dsc -rw-r--r-- 1 jenkins jenkins 11679 Jul 30 05:34 pairtools_1.1.3-1_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 12561 Jul 30 05:34 pairtools_1.1.3-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2114 Jul 30 05:34 pairtools_1.1.3-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 1721 Jul 30 05:34 pairtools_1.1.3-1_source.changes -rw-r--r-- 1 jenkins jenkins 1419753 Jul 30 05:34 pairtools_1.1.3.orig.tar.gz -rw-r--r-- 1 jenkins jenkins 781628 Jul 30 05:34 python3-pairtools-dbgsym_1.1.3-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 965564 Jul 30 05:34 python3-pairtools-examples_1.1.3-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 188668 Jul 30 05:34 python3-pairtools_1.1.3-1_arm64.deb /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b2: total 3452 -rw-r--r-- 1 jenkins jenkins 122264 Jul 30 05:38 build.log -rw-r--r-- 1 jenkins jenkins 7660 Jul 30 05:38 pairtools_1.1.3-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2494 Jul 30 05:38 pairtools_1.1.3-1.dsc -rw-r--r-- 1 jenkins jenkins 11679 Jul 30 05:38 pairtools_1.1.3-1_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 12561 Jul 30 05:38 pairtools_1.1.3-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2114 Jul 30 05:38 pairtools_1.1.3-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 1721 Jul 30 05:38 pairtools_1.1.3-1_source.changes -rw-r--r-- 1 jenkins jenkins 1419753 Jul 30 05:38 pairtools_1.1.3.orig.tar.gz -rw-r--r-- 1 jenkins jenkins 781628 Jul 30 05:38 python3-pairtools-dbgsym_1.1.3-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 965564 Jul 30 05:38 python3-pairtools-examples_1.1.3-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 188668 Jul 30 05:38 python3-pairtools_1.1.3-1_arm64.deb Wed Jul 30 05:38:30 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. Wed Jul 30 05:38:31 UTC 2025 I: pairtools_1.1.3-1_arm64.changes: Format: 1.8 Date: Sat, 15 Feb 2025 19:34:41 +0100 Source: pairtools Binary: python3-pairtools python3-pairtools-dbgsym python3-pairtools-examples Architecture: arm64 Version: 1.1.3-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: python3-pairtools - Framework to process sequencing data from a Hi-C experiment python3-pairtools-examples - Process sequencing data from a Hi-C experiment (examples) Closes: 1094701 Changes: pairtools (1.1.3-1) unstable; urgency=medium . * Team upload * New upstream version * Standards-Version: 4.7.0 (routine-update) * Remove trailing whitespace in debian/control (routine-update) * Call dh_numpy3 * Restrict architectures to 64 bit by Build-Depending architecture-is-64-bit Closes: #1094701 Checksums-Sha1: 5ccf6bae670d99e0ad154c9bf9ebf5b31fae051d 11679 pairtools_1.1.3-1_arm64.buildinfo 270f91ca0dcaa6c4e778bb06ff1b516689ac4185 781628 python3-pairtools-dbgsym_1.1.3-1_arm64.deb b504c74df23c47bab5a3d126295b4ca6e02e0d54 965564 python3-pairtools-examples_1.1.3-1_arm64.deb 562ff87161f9942d413b10757c0c043c02777b5f 188668 python3-pairtools_1.1.3-1_arm64.deb Checksums-Sha256: 1206d2b8ec7634947e394e176cea8d2670c6a064cc9325ed9546b470fcf15a05 11679 pairtools_1.1.3-1_arm64.buildinfo bcdc5778255f6f39b172495e6fc6a20b2ff81492e4ea183426c74547613a76d3 781628 python3-pairtools-dbgsym_1.1.3-1_arm64.deb c3b583eb899f3be15e7bc12c943d4f61166fd054dd31b3e7d5401a0d941635e4 965564 python3-pairtools-examples_1.1.3-1_arm64.deb 8dc1cd0a198a9b730cc5443e4553e9ca87c11471a00868c7dfd0588d4285750b 188668 python3-pairtools_1.1.3-1_arm64.deb Files: c121cfa5447fc58759808e63345bd514 11679 python optional pairtools_1.1.3-1_arm64.buildinfo 543834c447d7948b0ec843d8697b0d1c 781628 debug optional python3-pairtools-dbgsym_1.1.3-1_arm64.deb 0ca8b75d64de6e82b1161d249db00b92 965564 python optional python3-pairtools-examples_1.1.3-1_arm64.deb 1219112150f40847f00ae92fbb8a95ce 188668 python optional python3-pairtools_1.1.3-1_arm64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/pairtools_1.1.3-1.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/pairtools_1.1.3-1.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/arm64/pairtools_1.1.3-1.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/arm64/pairtools_1.1.3-1.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/trixie/arm64/pairtools_1.1.3-1_arm64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/pairtools_1.1.3-1.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-07-30 05:34:06.859111469 +0000 +++ b2/build.log 2025-07-30 05:38:29.967458877 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Jul 29 17:31:23 -12 2025 -I: pbuilder-time-stamp: 1753853483 +I: Current time: Wed Sep 2 01:57:09 +14 2026 +I: pbuilder-time-stamp: 1788263829 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying syntax_warning.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/828143/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/558025/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Sep 1 11:57 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/558025/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/558025/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' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='e130b9768d5245fea75085e17d115027' - 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='828143' - PS1='# ' - PS2='> ' + INVOCATION_ID=ba464c9cfc2f40968c7e1308a28ea5e6 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=558025 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.6sWn9CGk/pbuilderrc_0gV6 --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.6sWn9CGk/b1 --logfile b1/build.log pairtools_1.1.3-1.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pbuilderrc_kze7 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b2 --logfile b2/build.log pairtools_1.1.3-1.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/828143/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/558025/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -380,7 +412,7 @@ Get: 231 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 232 http://deb.debian.org/debian trixie/main arm64 python3-standard-pipes all 3.13.0-5 [7376 B] Get: 233 http://deb.debian.org/debian trixie/main arm64 python3-yaml arm64 6.0.2-1+b2 [122 kB] -Fetched 139 MB in 1s (232 MB/s) +Fetched 139 MB in 1s (112 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 19964 files and directories currently installed.) @@ -1133,8 +1165,8 @@ Setting up tzdata (2025b-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Jul 30 05:32:09 UTC 2025. -Universal Time is now: Wed Jul 30 05:32:09 UTC 2025. +Local time is now: Tue Sep 1 11:58:36 UTC 2026. +Universal Time is now: Tue Sep 1 11:58:36 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -1351,7 +1383,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/pairtools-1.1.3/ && 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 > ../pairtools_1.1.3-1_source.changes +I: user script /srv/workspace/pbuilder/558025/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/558025/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/pairtools-1.1.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../pairtools_1.1.3-1_source.changes dpkg-buildpackage: info: source package pairtools dpkg-buildpackage: info: source version 1.1.3-1 dpkg-buildpackage: info: source distribution unstable @@ -1394,8 +1430,8 @@ ******************************************************************************** Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). - By 2026-Feb-18, you need to update your project and remove deprecated calls - or your builds will no longer be supported. + This deprecation is overdue, please update your project and remove deprecated + calls to avoid build errors in the future. See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** @@ -1580,7 +1616,7 @@ Copying pairtools.egg-info to build/bdist.linux-aarch64/wheel/./pairtools-1.1.3.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/pairtools-1.1.3.dist-info/WHEEL -creating '/build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/.tmp-7trsq4lt/pairtools-1.1.3-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it +creating '/build/reproducible-path/pairtools-1.1.3/.pybuild/cpython3_3.13_pairtools/.tmp-o0t1cs93/pairtools-1.1.3-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'pairtools/__init__.py' adding 'pairtools/__main__.py' adding 'pairtools/_logging.py' @@ -1702,7 +1738,7 @@ sum(list(n_cis_pairs_above_convergence_dist.values())) / norm_factor ) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -================ 31 passed, 3 deselected, 6 warnings in 42.34s ================= +================ 31 passed, 3 deselected, 6 warnings in 49.41s ================= make[1]: Leaving directory '/build/reproducible-path/pairtools-1.1.3' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild @@ -1753,12 +1789,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/558025/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/558025/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/828143 and its subdirectories -I: Current time: Tue Jul 29 17:34:05 -12 2025 -I: pbuilder-time-stamp: 1753853645 +I: removing directory /srv/workspace/pbuilder/558025 and its subdirectories +I: Current time: Wed Sep 2 02:01:24 +14 2026 +I: pbuilder-time-stamp: 1788264084 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/pairtools_1.1.3-1.diff: 66.1% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/pairtools_1.1.3-1.diff.gz b2/build.log: 82.9% -- replaced with stdout Compressing the 1st log... b1/build.log: 83.2% -- replaced with stdout Wed Jul 30 05:38:31 UTC 2025 I: diffoscope 302 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_pairtools_trixie_arm64_1753853911 + touch /var/log/reproducible-builds/diffoscope_stamp_pairtools_trixie_arm64_1753853911 + RESULT=0 + systemd-run '--description=diffoscope on pairtools/1.1.3-1 in trixie/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_12-112060 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk --run-session -c jenkins-reproducible-trixie-diffoscope-f14e4a4c-fa10-44cb-9fc6-70b94176d316 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/dbd-tmp-l78d1jE ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pairtools_1.1.3-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pairtools_1.1.3-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pairtools_1.1.3-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b1/pairtools_1.1.3-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b2/pairtools_1.1.3-1_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_12-112060.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pairtools_1.1.3-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pairtools_1.1.3-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/pairtools_1.1.3-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b1/pairtools_1.1.3-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.6sWn9CGk/b2/pairtools_1.1.3-1_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 162ms CPU time consumed: 163ms _ _ _ _ __ __ _(_)_ __| |_ ___ ___ | |___ | '_ \ / _` | | '__| __/ _ \ / _ \| / __| | |_) | (_| | | | | || (_) | (_) | \__ \ | .__/ \__,_|_|_| \__\___/ \___/|_|___/ |_| Wed Jul 30 05:38:32 UTC 2025 I: diffoscope 302 found no differences in the changes files, and a .buildinfo file also exists. Wed Jul 30 05:38:32 UTC 2025 I: pairtools from trixie built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-07-30 05:38:32] INFO: Starting at 2025-07-30 05:38:32.624506 [2025-07-30 05:38:32] INFO: Generating the pages of 1 package(s) [2025-07-30 05:38:32] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/pairtools_1.1.3-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/pairtools_1.1.3-1.diff.gz is missing [2025-07-30 05:38:32] CRITICAL: https://tests.reproducible-builds.org/debian/trixie/arm64/pairtools didn't produce a buildlog, even though it has been built. [2025-07-30 05:38:32] INFO: Finished at 2025-07-30 05:38:32.806431, took: 0:00:00.181928 Wed Jul 30 05:38:32 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/trixie/arm64/pairtools.html Wed Jul 30 05:38:32 UTC 2025 I: Removing signed pairtools_1.1.3-1_arm64.buildinfo.asc files: removed './b1/pairtools_1.1.3-1_arm64.buildinfo.asc' removed './b2/pairtools_1.1.3-1_arm64.buildinfo.asc' 1753853912 arm64 trixie pairtools Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/pairtools_1.1.3-1.rbuild.log: 81.7% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/pairtools_1.1.3-1.rbuild.log.gz [2025-07-30 05:38:33] INFO: Starting at 2025-07-30 05:38:33.073096 [2025-07-30 05:38:33] INFO: Generating the pages of 1 package(s) [2025-07-30 05:38:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/pairtools_1.1.3-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/pairtools_1.1.3-1.diff.gz is missing [2025-07-30 05:38:33] INFO: Finished at 2025-07-30 05:38:33.250069, took: 0:00:00.176975 All cleanup done. Wed Jul 30 05:38:33 UTC 2025 - total duration: 0h 7m 28s. Wed Jul 30 05:38:33 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-rX3sAgoU, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 7min 29.252s CPU time consumed: 4.546s