I: pbuilder: network access will be disabled during build I: Current time: Mon Apr 13 12:20:52 -12 2026 I: pbuilder-time-stamp: 1776126052 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [python-gsd_3.4.2-2.dsc] I: copying [./python-gsd_3.4.2.orig.tar.gz] I: copying [./python-gsd_3.4.2-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./python-gsd_3.4.2-2.dsc: unsupported subcommand dpkg-source: info: extracting python-gsd in python-gsd-3.4.2 dpkg-source: info: unpacking python-gsd_3.4.2.orig.tar.gz dpkg-source: info: unpacking python-gsd_3.4.2-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying docs_local_scripts.patch dpkg-source: info: applying test_large_32bit.patch dpkg-source: info: applying doc_ignore_exceptions.patch dpkg-source: info: applying docs_build.patch dpkg-source: info: applying test_read_log_numpy2.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3303930/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='47d64a60c30e4e358182cadf6c5b129c' 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='3303930' 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.TdZY4bL5/pbuilderrc_ZEyd --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.TdZY4bL5/b1 --logfile b1/build.log python-gsd_3.4.2-2.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3303930/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cython3, dh-python, pybuild-plugin-pyproject, python3-setuptools, python3-all-dev, python3-ipython, python3-numpy (>= 1:1.19.0~), python3-pytest, python3-sphinx, architecture-properties, architecture-is-little-endian, python3-doc, doxygen, furo, libjs-mathjax, python3-breathe, python-numpy-doc, python3-pandas, python3-sphinx-rtd-theme, python3-sphinx-copybutton dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19783 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 cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-ipython; however: Package python3-ipython is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy (>= 1:1.19.0~); however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on architecture-properties; however: Package architecture-properties is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-little-endian; however: Package architecture-is-little-endian is not installed. pbuilder-satisfydepends-dummy depends on python3-doc; however: Package python3-doc is not installed. pbuilder-satisfydepends-dummy depends on doxygen; however: Package doxygen is not installed. pbuilder-satisfydepends-dummy depends on furo; however: Package furo is not installed. pbuilder-satisfydepends-dummy depends on libjs-mathjax; however: Package libjs-mathjax is not installed. pbuilder-satisfydepends-dummy depends on python3-breathe; however: Package python3-breathe is not installed. pbuilder-satisfydepends-dummy depends on python-numpy-doc; however: Package python-numpy-doc is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-rtd-theme; however: Package python3-sphinx-rtd-theme is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-copybutton; however: Package python3-sphinx-copybutton 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} bsdextrautils{a} ca-certificates{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} doxygen{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-font-awesome{a} fonts-lato{a} fonts-mathjax{a} furo{a} gettext{a} gettext-base{a} graphviz{a} groff-base{a} intltool-debian{a} libabsl20240722{a} libann0{a} libaom3{a} libarchive-zip-perl{a} libavif16{a} libblas3{a} libbrotli1{a} libcairo2{a} libcdt5{a} libcgraph6{a} libclang-cpp19{a} libclang1-19{a} libdatrie1{a} libdav1d7{a} libde265-0{a} libdebhelper-perl{a} libdeflate0{a} libedit2{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfmt10{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgav1-1{a} libgd3{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgts-0.7-5t64{a} libgvc6{a} libgvpr2{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libice6{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-mathjax{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} liblab-gamut1{a} liblapack3{a} liblerc4{a} libllvm19{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpathplan4{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{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} libraqm0{a} librav1e0.7{a} libreadline8t64{a} libsharpyuv0{a} libsm6{a} libsvtav1enc2{a} libthai-data{a} libthai0{a} libtiff6{a} libtool{a} libuchardet0{a} libunistring5{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6t64{a} libyuv0{a} libz3-4{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} po-debconf{a} pybuild-plugin-pyproject{a} python-babel-localedata{a} python-numpy-doc{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-asttokens{a} python3-autocommand{a} python3-babel{a} python3-breathe{a} python3-bs4{a} python3-build{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-dateutil{a} python3-decorator{a} python3-defusedxml{a} python3-dev{a} python3-doc{a} python3-docutils{a} python3-executing{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-iniconfig{a} python3-installer{a} python3-ipython{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jedi{a} python3-jinja2{a} python3-markupsafe{a} python3-matplotlib-inline{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-parso{a} python3-pexpect{a} python3-pkg-resources{a} python3-pluggy{a} python3-prompt-toolkit{a} python3-ptyprocess{a} python3-pure-eval{a} python3-pygments{a} python3-pyproject-hooks{a} python3-pytest{a} python3-pytz{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-snowballstemmer{a} python3-soupsieve{a} python3-sphinx{a} python3-sphinx-copybutton{a} python3-sphinx-rtd-theme{a} python3-sphinxcontrib.jquery{a} python3-stack-data{a} python3-toml{a} python3-traitlets{a} python3-typeguard{a} python3-typeshed{a} python3-typing-extensions{a} python3-tz{a} python3-urllib3{a} python3-wcwidth{a} python3-wheel{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-doc{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-basic-ng{a} sphinx-common{a} sphinx-rtd-theme-common{a} tzdata{a} x11-common{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl fonts-liberation javascript-common libarchive-cpio-perl libglib2.0-data libgts-bin libheif-plugin-aomenc libheif-plugin-x265 libjson-xs-perl libltdl-dev libmail-sendmail-perl libpaper-utils lynx python3-bottleneck python3-html5lib python3-lxml python3-matplotlib python3-numba python3-numexpr python3-odf python3-openpyxl python3-pil python3-scipy python3-tables shared-mime-info wget xdg-user-dirs 0 packages upgraded, 222 newly installed, 0 to remove and 0 not upgraded. Need to get 187 MB of archives. After unpacking 921 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 fonts-lato all 2.015-1 [2780 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.2-1 [859 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.2-1 [2205 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.2-2 [27.1 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 media-types all 13.0.0 [29.3 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 tzdata all 2025a-2 [259 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-6 [69.4 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-6 [169 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.2-1 [1979 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.2-1 [745 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.1 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.2-2 [28.1 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 python3-numpy-dev amd64 1:2.2.3+ds-5 [138 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.1-2 [160 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-17 [836 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.1-2 [2452 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 python3-numpy amd64 1:2.2.3+ds-5 [5084 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 sgml-base all 1.31 [15.4 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.4.1-1 [1427 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20241223 [164 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-5 [92.4 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 architecture-properties amd64 0.2.6 [2336 B] Get: 35 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-7 [294 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-3 [862 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 cython3 amd64 3.0.11+dfsg-2+b1 [2504 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 47 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b2 [699 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20250308 [115 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 xml-core all 0.19 [20.1 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libllvm19 amd64 1:19.1.7-1+b1 [26.0 MB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libclang-cpp19 amd64 1:19.1.7-1+b1 [13.2 MB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libclang1-19 amd64 1:19.1.7-1+b1 [7614 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libfmt10 amd64 10.1.1+ds1-4 [127 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 doxygen amd64 1.9.8+ds-2.1 [5017 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.47-1 [282 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-2.1 [318 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-2.1 [391 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.15.0-2.1 [463 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 python3-soupsieve all 2.6-1 [38.3 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 python3-bs4 all 4.13.3-1 [166 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 python3-defusedxml all 0.7.1-3 [43.4 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 sphinx-common all 8.1.3-5 [617 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 python-babel-localedata all 2.17.0-1 [6050 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 python3-babel all 2.17.0-1 [117 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 python3-roman all 5.0-1 [10.6 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 python3-imagesize all 1.4.1-1 [6688 B] Get: 92 http://deb.debian.org/debian unstable/main amd64 python3-markupsafe amd64 2.1.5-1+b3 [14.0 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 python3-jinja2 all 3.1.5-2 [107 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 24.2-1 [55.3 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 96 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer amd64 3.4.1-1+b1 [125 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.10-1 [42.0 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 2.3.0-1 [114 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.32.3+dfsg-4 [72.1 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 python3-snowballstemmer all 2.2.0-4 [58.0 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 python3-sphinx all 8.1.3-5 [468 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 sphinx-basic-ng all 1.0.0~beta2-1 [13.0 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 furo all 2024.08.06+dfsg-1 [62.8 kB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libann0 amd64 1.1.2+doc-9+b1 [25.1 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libcdt5 amd64 2.42.4-3 [40.3 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 libcgraph6 amd64 2.42.4-3 [64.0 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libaom3 amd64 3.12.0-1 [1870 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libdav1d7 amd64 1.5.1-1 [559 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libabsl20240722 amd64 20240722.0-1.5 [492 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libgav1-1 amd64 0.19.0-3+b1 [353 kB] Get: 112 http://deb.debian.org/debian unstable/main amd64 librav1e0.7 amd64 0.7.1-9+b1 [946 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libsvtav1enc2 amd64 2.3.0+dfsg-1 [2489 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3.1 [168 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libyuv0 amd64 0.0.1904.20250204-1 [174 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 libavif16 amd64 1.2.0-1 [133 kB] Get: 117 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get: 118 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-dav1d amd64 1.19.7-1 [11.7 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libde265-0 amd64 1.0.15-1+b3 [189 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-libde265 amd64 1.19.7-1 [15.3 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 libheif1 amd64 1.19.7-1 [520 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libimagequant0 amd64 2.18.0-1+b2 [35.2 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1514 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 10.2.0-1 [479 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libraqm0 amd64 0.10.2-1 [13.9 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.23-1+b1 [47.5 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get: 132 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 133 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 134 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 135 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 136 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get: 137 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get: 138 http://deb.debian.org/debian unstable/main amd64 libxpm4 amd64 1:3.5.17-1+b3 [56.2 kB] Get: 139 http://deb.debian.org/debian unstable/main amd64 libgd3 amd64 2.3.3-12+b1 [126 kB] Get: 140 http://deb.debian.org/debian unstable/main amd64 libgts-0.7-5t64 amd64 0.7.6+darcs121130-5.2+b1 [160 kB] Get: 141 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get: 142 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 143 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 144 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 145 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b4 [27.8 kB] Get: 146 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 147 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.5.4-4 [416 kB] Get: 148 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 149 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get: 150 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 151 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.56.1-1 [226 kB] Get: 152 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.56.1-1 [55.3 kB] Get: 153 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.56.1-1 [35.8 kB] Get: 154 http://deb.debian.org/debian unstable/main amd64 libpathplan4 amd64 2.42.4-3 [42.6 kB] Get: 155 http://deb.debian.org/debian unstable/main amd64 libgvc6 amd64 2.42.4-3 [686 kB] Get: 156 http://deb.debian.org/debian unstable/main amd64 libgvpr2 amd64 2.42.4-3 [192 kB] Get: 157 http://deb.debian.org/debian unstable/main amd64 liblab-gamut1 amd64 2.42.4-3 [198 kB] Get: 158 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+24 [217 kB] Get: 159 http://deb.debian.org/debian unstable/main amd64 libice6 amd64 2:1.1.1-1 [65.4 kB] Get: 160 http://deb.debian.org/debian unstable/main amd64 libsm6 amd64 2:1.2.4-1 [35.2 kB] Get: 161 http://deb.debian.org/debian unstable/main amd64 libxt6t64 amd64 1:1.2.1-1.2+b2 [188 kB] Get: 162 http://deb.debian.org/debian unstable/main amd64 libxmu6 amd64 2:1.1.3-3+b4 [59.0 kB] Get: 163 http://deb.debian.org/debian unstable/main amd64 libxaw7 amd64 2:1.0.16-1 [212 kB] Get: 164 http://deb.debian.org/debian unstable/main amd64 graphviz amd64 2.42.4-3 [621 kB] Get: 165 http://deb.debian.org/debian unstable/main amd64 libexpat1-dev amd64 2.6.4-1 [158 kB] Get: 166 http://deb.debian.org/debian unstable/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get: 167 http://deb.debian.org/debian unstable/main amd64 libpython3.13 amd64 3.13.2-1 [2151 kB] Get: 168 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 169 http://deb.debian.org/debian unstable/main amd64 libpython3.13-dev amd64 3.13.2-1 [5005 kB] Get: 170 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.13.2-2 [10.3 kB] Get: 171 http://deb.debian.org/debian unstable/main amd64 libpython3-all-dev amd64 3.13.2-2 [1068 B] Get: 172 http://deb.debian.org/debian unstable/main amd64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 173 http://deb.debian.org/debian unstable/main amd64 python3-toml all 0.10.2-1 [16.2 kB] Get: 174 http://deb.debian.org/debian unstable/main amd64 python3-wheel all 0.45.1-1 [56.7 kB] Get: 175 http://deb.debian.org/debian unstable/main amd64 python3-build all 1.2.2-1 [36.0 kB] Get: 176 http://deb.debian.org/debian unstable/main amd64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 177 http://deb.debian.org/debian unstable/main amd64 pybuild-plugin-pyproject all 6.20250308 [11.7 kB] Get: 178 http://deb.debian.org/debian unstable/main amd64 python-numpy-doc all 1:2.2.3+ds-5 [5812 kB] Get: 179 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.13.2-2 [1044 B] Get: 180 http://deb.debian.org/debian unstable/main amd64 python3.13-dev amd64 3.13.2-1 [507 kB] Get: 181 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.13.2-2 [26.1 kB] Get: 182 http://deb.debian.org/debian unstable/main amd64 python3-all-dev amd64 3.13.2-2 [1064 B] Get: 183 http://deb.debian.org/debian unstable/main amd64 python3-asttokens all 3.0.0-1 [20.1 kB] Get: 184 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 185 http://deb.debian.org/debian unstable/main amd64 python3-breathe all 4.35.0-3 [78.2 kB] Get: 186 http://deb.debian.org/debian unstable/main amd64 python3-dateutil all 2.9.0-3 [79.3 kB] Get: 187 http://deb.debian.org/debian unstable/main amd64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 188 http://deb.debian.org/debian unstable/main amd64 python3.13-doc all 3.13.2-1 [15.3 MB] Get: 189 http://deb.debian.org/debian unstable/main amd64 python3-doc all 3.13.2-2 [10.3 kB] Get: 190 http://deb.debian.org/debian unstable/main amd64 python3-executing all 2.2.0-0.1 [24.5 kB] Get: 191 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 192 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 193 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 194 http://deb.debian.org/debian unstable/main amd64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 195 http://deb.debian.org/debian unstable/main amd64 python3-parso all 0.8.4-1 [67.8 kB] Get: 196 http://deb.debian.org/debian unstable/main amd64 python3-typeshed all 0.0~git20241223.ea91db2-1 [1530 kB] Get: 197 http://deb.debian.org/debian unstable/main amd64 python3-jedi all 0.19.1+ds1-1 [691 kB] Get: 198 http://deb.debian.org/debian unstable/main amd64 python3-traitlets all 5.14.3+really5.14.3-1 [70.9 kB] Get: 199 http://deb.debian.org/debian unstable/main amd64 python3-matplotlib-inline all 0.1.6-2 [8652 B] Get: 200 http://deb.debian.org/debian unstable/main amd64 python3-wcwidth all 0.2.13+dfsg1-1 [24.9 kB] Get: 201 http://deb.debian.org/debian unstable/main amd64 python3-prompt-toolkit all 3.0.50-1 [278 kB] Get: 202 http://deb.debian.org/debian unstable/main amd64 python3-pure-eval all 0.2.3-1 [11.2 kB] Get: 203 http://deb.debian.org/debian unstable/main amd64 python3-stack-data all 0.6.3-1 [21.6 kB] Get: 204 http://deb.debian.org/debian unstable/main amd64 python3-ptyprocess all 0.7.0-6 [14.5 kB] Get: 205 http://deb.debian.org/debian unstable/main amd64 python3-pexpect all 4.9-3 [55.6 kB] Get: 206 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 207 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 208 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.8.0-1 [222 kB] Get: 209 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 210 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 211 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.8.0-1 [724 kB] Get: 212 http://deb.debian.org/debian unstable/main amd64 python3-ipython all 8.30.0-2 [568 kB] Get: 213 http://deb.debian.org/debian unstable/main amd64 python3-pytz all 2025.1-3 [150 kB] Get: 214 http://deb.debian.org/debian unstable/main amd64 python3-tz all 2025.1-3 [4004 B] Get: 215 http://deb.debian.org/debian unstable/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-8+b1 [4517 kB] Get: 216 http://deb.debian.org/debian unstable/main amd64 python3-pandas all 2.2.3+dfsg-8 [3097 kB] Get: 217 http://deb.debian.org/debian unstable/main amd64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 218 http://deb.debian.org/debian unstable/main amd64 python3-pytest all 8.3.5-1 [250 kB] Get: 219 http://deb.debian.org/debian unstable/main amd64 python3-sphinx-copybutton all 0.5.2-2 [17.9 kB] Get: 220 http://deb.debian.org/debian unstable/main amd64 sphinx-rtd-theme-common all 3.0.2+dfsg-2 [1023 kB] Get: 221 http://deb.debian.org/debian unstable/main amd64 python3-sphinxcontrib.jquery all 4.1-5 [7348 B] Get: 222 http://deb.debian.org/debian unstable/main amd64 python3-sphinx-rtd-theme all 3.0.2+dfsg-2 [29.7 kB] Fetched 187 MB in 4s (49.4 MB/s) Preconfiguring packages ... Selecting previously unselected package fonts-lato. (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 ... 19783 files and directories currently installed.) Preparing to unpack .../fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.2-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.2-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.2-1_amd64.deb ... Unpacking python3.13-minimal (3.13.2-1) ... Setting up libpython3.13-minimal:amd64 (3.13.2-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.13-minimal (3.13.2-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.2-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.2-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.2-1_amd64.deb ... Unpacking python3.13 (3.13.2-1) ... Selecting previously unselected package libpython3-stdlib:amd64. 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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/python-gsd-3.4.2/ && 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 > ../python-gsd_3.4.2-2_source.changes dpkg-buildpackage: info: source package python-gsd dpkg-buildpackage: info: source version 3.4.2-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Drew Parsons dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 dpkg-source: info: using options from python-gsd-3.4.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild dh_autoreconf_clean -O--buildsystem=pybuild debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/python-gsd-3.4.2' dh_clean rm -f gsd/fl.c || /bin/true rm -rf devdoc rm -rf gsd/test/.pytest_cache make[1]: Leaving directory '/build/reproducible-path/python-gsd-3.4.2' debian/rules binary dh binary --with python3,sphinxdoc --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/python-gsd-3.4.2/.pybuild/cpython3_3.13_gsd * Building wheel... Compiling gsd/fl.pyx because it changed. [1/1] Cythonizing gsd/fl.pyx running bdist_wheel running build running build_py creating build/lib.linux-x86_64-cpython-313/gsd copying gsd/pygsd.py -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/hoomd.py -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/version.py -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/__init__.py -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/pytest_plugin_validate.py -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/__main__.py -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/conftest.py -> build/lib.linux-x86_64-cpython-313/gsd creating build/lib.linux-x86_64-cpython-313/gsd/test copying gsd/test/test_fl.py -> build/lib.linux-x86_64-cpython-313/gsd/test copying gsd/test/test_hoomd.py -> build/lib.linux-x86_64-cpython-313/gsd/test copying gsd/test/test_largefile.py -> build/lib.linux-x86_64-cpython-313/gsd/test copying gsd/test/conftest.py -> build/lib.linux-x86_64-cpython-313/gsd/test running egg_info creating gsd.egg-info writing gsd.egg-info/PKG-INFO writing dependency_links to gsd.egg-info/dependency_links.txt writing entry points to gsd.egg-info/entry_points.txt writing requirements to gsd.egg-info/requires.txt writing top-level names to gsd.egg-info/top_level.txt writing manifest file 'gsd.egg-info/SOURCES.txt' dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative reading manifest file 'gsd.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'gsd.egg-info/SOURCES.txt' copying gsd/fl.c -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/fl.pyx -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/gsd.c -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/gsd.h -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/libgsd.pxd -> build/lib.linux-x86_64-cpython-313/gsd copying gsd/test/pytest.ini -> build/lib.linux-x86_64-cpython-313/gsd/test copying gsd/test/test_gsd_v1.gsd -> build/lib.linux-x86_64-cpython-313/gsd/test running build_ext building 'gsd.fl' extension creating build/temp.linux-x86_64-cpython-313/gsd x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-gsd-3.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DNPY_NO_DEPRECATED_API=NPY_1_7_API_VERSION -Igsd -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c gsd/fl.c -o build/temp.linux-x86_64-cpython-313/gsd/fl.o x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-gsd-3.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DNPY_NO_DEPRECATED_API=NPY_1_7_API_VERSION -Igsd -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c gsd/gsd.c -o build/temp.linux-x86_64-cpython-313/gsd/gsd.o x86_64-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/python-gsd-3.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/gsd/fl.o build/temp.linux-x86_64-cpython-313/gsd/gsd.o -L/usr/lib/x86_64-linux-gnu -o build/lib.linux-x86_64-cpython-313/gsd/fl.cpython-313-x86_64-linux-gnu.so installing to build/bdist.linux-x86_64/wheel running install running install_lib creating build/bdist.linux-x86_64/wheel creating build/bdist.linux-x86_64/wheel/gsd copying build/lib.linux-x86_64-cpython-313/gsd/gsd.c -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/gsd.h -> build/bdist.linux-x86_64/wheel/./gsd creating build/bdist.linux-x86_64/wheel/gsd/test copying build/lib.linux-x86_64-cpython-313/gsd/test/test_fl.py -> build/bdist.linux-x86_64/wheel/./gsd/test copying build/lib.linux-x86_64-cpython-313/gsd/test/test_hoomd.py -> build/bdist.linux-x86_64/wheel/./gsd/test copying build/lib.linux-x86_64-cpython-313/gsd/test/pytest.ini -> build/bdist.linux-x86_64/wheel/./gsd/test copying build/lib.linux-x86_64-cpython-313/gsd/test/test_gsd_v1.gsd -> build/bdist.linux-x86_64/wheel/./gsd/test copying build/lib.linux-x86_64-cpython-313/gsd/test/test_largefile.py -> build/bdist.linux-x86_64/wheel/./gsd/test copying build/lib.linux-x86_64-cpython-313/gsd/test/conftest.py -> build/bdist.linux-x86_64/wheel/./gsd/test copying build/lib.linux-x86_64-cpython-313/gsd/pygsd.py -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/fl.cpython-313-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/hoomd.py -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/version.py -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/__init__.py -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/fl.pyx -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/fl.c -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/pytest_plugin_validate.py -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/__main__.py -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/libgsd.pxd -> build/bdist.linux-x86_64/wheel/./gsd copying build/lib.linux-x86_64-cpython-313/gsd/conftest.py -> build/bdist.linux-x86_64/wheel/./gsd running install_egg_info Copying gsd.egg-info to build/bdist.linux-x86_64/wheel/./gsd-3.4.2.egg-info running install_scripts creating build/bdist.linux-x86_64/wheel/gsd-3.4.2.dist-info/WHEEL creating '/build/reproducible-path/python-gsd-3.4.2/.pybuild/cpython3_3.13_gsd/.tmp-quqmjq5_/gsd-3.4.2-cp313-cp313-linux_x86_64.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'gsd/__init__.py' adding 'gsd/__main__.py' adding 'gsd/conftest.py' adding 'gsd/fl.c' adding 'gsd/fl.cpython-313-x86_64-linux-gnu.so' adding 'gsd/fl.pyx' adding 'gsd/gsd.c' adding 'gsd/gsd.h' adding 'gsd/hoomd.py' adding 'gsd/libgsd.pxd' adding 'gsd/pygsd.py' adding 'gsd/pytest_plugin_validate.py' adding 'gsd/version.py' adding 'gsd/test/conftest.py' adding 'gsd/test/pytest.ini' adding 'gsd/test/test_fl.py' adding 'gsd/test/test_gsd_v1.gsd' adding 'gsd/test/test_hoomd.py' adding 'gsd/test/test_largefile.py' adding 'gsd-3.4.2.dist-info/LICENSE' adding 'gsd-3.4.2.dist-info/METADATA' adding 'gsd-3.4.2.dist-info/WHEEL' adding 'gsd-3.4.2.dist-info/entry_points.txt' adding 'gsd-3.4.2.dist-info/top_level.txt' adding 'gsd-3.4.2.dist-info/RECORD' removing build/bdist.linux-x86_64/wheel Successfully built gsd-3.4.2-cp313-cp313-linux_x86_64.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module debian/rules execute_after_dh_auto_build-indep make[1]: Entering directory '/build/reproducible-path/python-gsd-3.4.2' doxygen warning: Tag 'OUTPUT_TEXT_DIRECTION' at line 15 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'TCL_SUBST' at line 43 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'COLS_IN_ALPHA_INDEX' at line 152 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_TIMESTAMP' at line 168 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'FORMULA_TRANSPARENT' at line 200 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'LATEX_SOURCE_CODE' at line 232 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'LATEX_TIMESTAMP' at line 234 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'RTF_SOURCE_CODE' at line 245 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOCBOOK_PROGRAMLISTING' at line 266 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'CLASS_DIAGRAMS' at line 301 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTNAME' at line 306 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTSIZE' at line 307 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_TRANSPARENT' at line 332 of file 'Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" Doxygen version used: 1.9.8 Notice: Output directory 'devdoc' does not exist. I have created it for you. Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching INPUT for files to process... Searching for files in directory /build/reproducible-path/python-gsd-3.4.2/gsd Searching for files in directory /build/reproducible-path/python-gsd-3.4.2/gsd/test Reading and parsing tag files Parsing files Preprocessing /build/reproducible-path/python-gsd-3.4.2/gsd/gsd.h... Parsing file /build/reproducible-path/python-gsd-3.4.2/gsd/gsd.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Building concept list... Computing nesting relations for classes... Associating documentation with classes... Associating documentation with concepts... Associating documentation with modules... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Computing module relations... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating example documentation... Generating file sources... Generating code for file gsd/gsd.h... Generating file documentation... Generating docs for file gsd/gsd.h... Generating page documentation... Generating group documentation... Generating class documentation... Generating docs for compound gsd_byte_buffer... Generating docs for compound gsd_handle... Generating docs for compound gsd_header... Generating docs for compound gsd_index_buffer... Generating docs for compound gsd_index_entry... Generating docs for compound gsd_name_buffer... Generating docs for compound gsd_name_id_map... Generating docs for compound gsd_name_id_pair... Generating concept documentation... Generating module documentation... Generating namespace documentation... Generating graph info page... Generating directory documentation... finalizing index lists... writing tag file... Generating XML output... Generating XML output for class gsd_byte_buffer Generating XML output for class gsd_handle Generating XML output for class gsd_header Generating XML output for class gsd_index_buffer Generating XML output for class gsd_index_entry Generating XML output for class gsd_name_buffer Generating XML output for class gsd_name_id_map Generating XML output for class gsd_name_id_pair Generating XML output for file gsd.h Generate XML output for dir /build/reproducible-path/python-gsd-3.4.2/gsd/ Running plantuml with JAVA... type lookup cache used 139/65536 hits=400 misses=148 symbol lookup cache used 179/65536 hits=561 misses=179 finished... PYTHONPATH=/build/reproducible-path/python-gsd-3.4.2/.pybuild/cpython3_3.13_gsd/build READTHEDOCS=True sphinx-build -b html doc /build/reproducible-path/python-gsd-3.4.2/.pybuild/html # HTML generator Running Sphinx v8.1.3 loading translations [en]... done /usr/lib/python3/dist-packages/breathe/project.py:116: RemovedInSphinx90Warning: Sphinx 9 will drop support for representing paths as strings. Use "pathlib.Path" or "os.fspath" instead. self._default_build_dir = os.path.dirname(app.doctreedir.rstrip(os.sep)) making output directory... done Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. loading intersphinx inventory 'python' from /usr/share/doc/python3/html/objects.inv ... loading intersphinx inventory 'numpy' from /usr/share/doc/python-numpy/html/objects.inv ... building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 22 source files that are out of date updating environment: [new config] 22 added, 0 changed, 0 removed reading sources... [ 5%] c-api reading sources... [ 9%] changes reading sources... [ 14%] cli reading sources... [ 18%] community reading sources... [ 23%] contributing reading sources... [ 27%] credits reading sources... [ 32%] file-layer reading sources... [ 36%] fl-examples /usr/lib/python3/dist-packages/IPython/paths.py:69: UserWarning: IPython parent '/nonexistent/first-build' is not a writable location, using a temp directory. warn("IPython parent '{0}' is not a writable location," /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' reading sources... [ 41%] hoomd-examples /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy implicit data copy when writing chunk: log/value/potential_energy /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms implicit data copy when writing chunk: log/invalid /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' reading sources... [ 45%] index reading sources... [ 50%] indices reading sources... [ 55%] installation reading sources... [ 59%] license reading sources... [ 64%] python-api reading sources... [ 68%] python-module-gsd.fl /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' reading sources... [ 73%] python-module-gsd.hoomd /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:795: UserWarning: This is now an optional IPython functionality, setting bookmarks requires you to install the `pickleshare` library. self.shell.db['bookmarks'] = bkms /usr/lib/python3/dist-packages/IPython/core/magics/osm.py:761: UserWarning: This is now an optional IPython functionality, using bookmarks requires you to install the `pickleshare` library. bkms = self.shell.db.get('bookmarks',{}) UsageError: %bookmark -d: Can't delete bookmark 'ipy_savedir' reading sources... [ 77%] python-module-gsd.pygsd reading sources... [ 82%] python-module-gsd.version reading sources... [ 86%] schema-hoomd reading sources... [ 91%] shapes reading sources... [ 95%] specification reading sources... [100%] style /build/reproducible-path/python-gsd-3.4.2/doc/c-api.rst:12: WARNING: Invalid C declaration: Expected identifier in nested name. [error at 0] ^ /build/reproducible-path/python-gsd-3.4.2/doc/c-api.rst:12: WARNING: Invalid C declaration: Expected identifier in nested name. [error at 0] ^ docstring of gsd.fl.GSDFile.chunk_exists:13: ERROR: Error in "highlight" directive: no content permitted. .. highlight:: python with gsd.fl.open(name='file.gsd', mode='w', application="My application", schema="My Schema", schema_version=[1,0]) as f: f.write_chunk(name='chunk1', data=numpy.array([1,2,3,4], dtype=numpy.float32)) f.write_chunk(name='chunk2', data=numpy.array([[5,6],[7,8]], dtype=numpy.float32)) f.end_frame() f.write_chunk(name='chunk1', data=numpy.array([9,10,11,12], dtype=numpy.float32)) f.write_chunk(name='chunk2', data=numpy.array([[13,14],[15,16]], dtype=numpy.float32)) f.end_frame() f = gsd.fl.open(name='file.gsd', mode='r', application="My application", schema="My Schema", schema_version=[1,0]) f.chunk_exists(frame=0, name='chunk1') f.chunk_exists(frame=0, name='chunk2') f.chunk_exists(frame=0, name='chunk3') f.chunk_exists(frame=10, name='chunk1') f.close() [docutils] docstring of gsd.fl.GSDFile.truncate:10: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils] docstring of gsd.fl.GSDFile.truncate:14: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils] docstring of gsd.fl.GSDFile.truncate:19: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils] looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done copying assets... copying static files... Writing evaluated template result to /build/reproducible-path/python-gsd-3.4.2/.pybuild/html/_static/documentation_options.js Writing evaluated template result to /build/reproducible-path/python-gsd-3.4.2/.pybuild/html/_static/basic.css Writing evaluated template result to /build/reproducible-path/python-gsd-3.4.2/.pybuild/html/_static/language_data.js Writing evaluated template result to /build/reproducible-path/python-gsd-3.4.2/.pybuild/html/_static/copybutton.js copying static files: done copying extra files... copying extra files: done copying assets: done writing output... [ 5%] c-api writing output... [ 9%] changes writing output... [ 14%] cli writing output... [ 18%] community writing output... [ 23%] contributing writing output... [ 27%] credits writing output... [ 32%] file-layer writing output... [ 36%] fl-examples writing output... [ 41%] hoomd-examples writing output... [ 45%] index writing output... [ 50%] indices writing output... [ 55%] installation writing output... [ 59%] license writing output... [ 64%] python-api writing output... [ 68%] python-module-gsd.fl writing output... [ 73%] python-module-gsd.hoomd writing output... [ 77%] python-module-gsd.pygsd writing output... [ 82%] python-module-gsd.version writing output... [ 86%] schema-hoomd writing output... [ 91%] shapes writing output... [ 95%] specification writing output... [100%] style /build/reproducible-path/python-gsd-3.4.2/.pybuild/cpython3_3.13_gsd/build/gsd/hoomd.py:docstring of gsd.hoomd.BondData:13: WARNING: 'any' reference target not found: hoomd.State [ref.any] /build/reproducible-path/python-gsd-3.4.2/.pybuild/cpython3_3.13_gsd/build/gsd/hoomd.py:docstring of gsd.hoomd.ConstraintData:11: WARNING: 'any' reference target not found: hoomd.State [ref.any] /build/reproducible-path/python-gsd-3.4.2/.pybuild/cpython3_3.13_gsd/build/gsd/hoomd.py:docstring of gsd.hoomd.ParticleData:11: WARNING: 'any' reference target not found: hoomd.State [ref.any] /build/reproducible-path/python-gsd-3.4.2/doc/schema-hoomd.rst:21: WARNING: 'any' reference target not found: hoomd.State [ref.any] generating indices... genindex py-modindex done writing additional pages... search done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 10 warnings. The HTML pages are in ../../build/reproducible-path/python-gsd-3.4.2/.pybuild/html. make[1]: Leaving directory '/build/reproducible-path/python-gsd-3.4.2' dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/python-gsd-3.4.2/.pybuild/cpython3_3.13_gsd/build; python3.13 -m pytest /build/reproducible-path/python-gsd-3.4.2/gsd/test ============================= test session starts ============================== platform linux -- Python 3.13.2, pytest-8.3.5, pluggy-1.5.0 rootdir: /build/reproducible-path/python-gsd-3.4.2/gsd/test configfile: pytest.ini plugins: typeguard-4.4.2 collected 134 items ../../../gsd/test/test_fl.py ........................................... [ 32%] ...................................... [ 60%] ../../../gsd/test/test_hoomd.py ........................................ [ 90%] .......... [ 97%] ../../../gsd/test/test_largefile.py ... [100%] =============================== warnings summary =============================== ../../../gsd/test/test_largefile.py:15 /build/reproducible-path/python-gsd-3.4.2/gsd/test/test_largefile.py:15: PytestUnknownMarkWarning: Unknown pytest.mark.validate - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html @pytest.mark.validate -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ================== 134 passed, 1 warning in 135.44s (0:02:15) ================== 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 dh_installdocs -O--buildsystem=pybuild dh_installdocs: warning: Cannot auto-detect main package for python-gsd-doc. If the default is wrong, please use --doc-main-package dh_sphinxdoc -O--buildsystem=pybuild dh_sphinxdoc: warning: ignoring unknown JavaScript code: debian/python-gsd-doc/usr/share/doc/python-gsd-doc/html/_static/clipboard.min.js dh_sphinxdoc: warning: ignoring unknown JavaScript code: debian/python-gsd-doc/usr/share/doc/python-gsd-doc/html/_static/copybutton.js dh_sphinxdoc: warning: ignoring unknown JavaScript code: debian/python-gsd-doc/usr/share/doc/python-gsd-doc/html/_static/copybutton_funcs.js dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild debian/rules execute_after_dh_python3 make[1]: Entering directory '/build/reproducible-path/python-gsd-3.4.2' dh_numpy3 Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. make[1]: Leaving directory '/build/reproducible-path/python-gsd-3.4.2' dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package python-gsd-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-gsd' in '../python3-gsd_3.4.2-2_amd64.deb'. dpkg-deb: building package 'python-gsd-doc' in '../python-gsd-doc_3.4.2-2_all.deb'. dpkg-deb: building package 'python3-gsd-dbgsym' in '../python3-gsd-dbgsym_3.4.2-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../python-gsd_3.4.2-2_amd64.buildinfo dpkg-genchanges --build=binary -O../python-gsd_3.4.2-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from python-gsd-3.4.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3303930 and its subdirectories I: Current time: Mon Apr 13 12:28:14 -12 2026 I: pbuilder-time-stamp: 1776126494