I: pbuilder: network access will be disabled during build I: Current time: Fri Jun 20 06:24:40 +14 2025 I: pbuilder-time-stamp: 1750350280 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-cobra_0.29.0-2.dsc] I: copying [./python-cobra_0.29.0.orig.tar.gz] I: copying [./python-cobra_0.29.0-2.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Apr 28 05:55:08 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./python-cobra_0.29.0-2.dsc: no acceptable signature found dpkg-source: info: extracting python-cobra in python-cobra-0.29.0 dpkg-source: info: unpacking python-cobra_0.29.0.orig.tar.gz dpkg-source: info: unpacking python-cobra_0.29.0-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying mathjax.patch dpkg-source: info: applying xfail_test_show_versions.patch dpkg-source: info: applying ignore_tests.patch dpkg-source: info: applying do-not-seek-for-name.patch dpkg-source: info: applying 32-bit-test.patch dpkg-source: info: applying no_future_dependency.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1848537/tmp/hooks/D01_modify_environment starting debug: Running on ionos5-amd64. 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 Jun 19 16:24 /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/1848537/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/1848537/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]="21" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.21(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=a883f65b015147708acd0f6f02868332 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-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=1848537 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.F0HPQNcx/pbuilderrc_OZIh --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.F0HPQNcx/b2 --logfile b2/build.log python-cobra_0.29.0-2.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 19 14:05 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1848537/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), dh-sequence-python3, libglpk-dev, python3-dev, python3-setuptools, python3-depinfo, python3-importlib-resources, python3-numpy, python3-optlang (>= 1.7.0-1~), python3-ruamel.yaml, python3-pandas, python3-pip, python3-pipdeptree, python3-requests, python3-swiglpk (>= 5.0.8-1~), python3-tabulate, python3-sbml5, python3-simplejson, cython3, python3-pytest, python3-pytest-benchmark, python3-pytest-mock, python3-jsonschema, libsbml5-dev, python3-matplotlib, python3-appdirs, python3-diskcache, python3-httpx, python3-pydantic, python3-rich dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19719 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 libglpk-dev; however: Package libglpk-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-dev; however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-depinfo; however: Package python3-depinfo is not installed. pbuilder-satisfydepends-dummy depends on python3-importlib-resources; however: Package python3-importlib-resources is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-optlang (>= 1.7.0-1~); however: Package python3-optlang is not installed. pbuilder-satisfydepends-dummy depends on python3-ruamel.yaml; however: Package python3-ruamel.yaml is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pip; however: Package python3-pip is not installed. pbuilder-satisfydepends-dummy depends on python3-pipdeptree; however: Package python3-pipdeptree is not installed. pbuilder-satisfydepends-dummy depends on python3-requests; however: Package python3-requests is not installed. pbuilder-satisfydepends-dummy depends on python3-swiglpk (>= 5.0.8-1~); however: Package python3-swiglpk is not installed. pbuilder-satisfydepends-dummy depends on python3-tabulate; however: Package python3-tabulate is not installed. pbuilder-satisfydepends-dummy depends on python3-sbml5; however: Package python3-sbml5 is not installed. pbuilder-satisfydepends-dummy depends on python3-simplejson; however: Package python3-simplejson is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-benchmark; however: Package python3-pytest-benchmark is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-mock; however: Package python3-pytest-mock is not installed. pbuilder-satisfydepends-dummy depends on python3-jsonschema; however: Package python3-jsonschema is not installed. pbuilder-satisfydepends-dummy depends on libsbml5-dev; however: Package libsbml5-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-appdirs; however: Package python3-appdirs is not installed. pbuilder-satisfydepends-dummy depends on python3-diskcache; however: Package python3-diskcache is not installed. pbuilder-satisfydepends-dummy depends on python3-httpx; however: Package python3-httpx is not installed. pbuilder-satisfydepends-dummy depends on python3-pydantic; however: Package python3-pydantic is not installed. pbuilder-satisfydepends-dummy depends on python3-rich; however: Package python3-rich is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} ca-certificates{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} libamd3{a} libarchive-zip-perl{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbsd0{a} libbtf2{a} libcamd3{a} libccolamd3{a} libcholmod5{a} libcolamd3{a} libcxsparse4{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libglpk-dev{a} libglpk40{a} libgmp-dev{a} libgmpxx4ldbl{a} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libklu2{a} liblapack-dev{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldl3{a} liblerc4{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libopenjp2-7{a} libparu0{a} libpipeline1{a} libpng16-16t64{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.11t64{a} libqhull-r8.0{a} libraqm0{a} librbio4{a} libreadline8t64{a} libsbml5-dev{a} libsbml5t64{a} libsharpyuv0{a} libspex3{a} libspqr4{a} libsub-override-perl{a} libsuitesparse-dev{a} libsuitesparse-mongoose3{a} libsuitesparseconfig7{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libumfpack6{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} po-debconf{a} python-matplotlib-data{a} python3{a} python3-anyio{a} python3-appdirs{a} python3-attr{a} python3-brotli{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-colorama{a} python3-contourpy{a} python3-cpuinfo{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-depinfo{a} python3-dev{a} python3-diskcache{a} python3-distutils{a} python3-fonttools{a} python3-fs{a} python3-h11{a} python3-hatch-vcs{a} python3-hatchling{a} python3-httpcore{a} python3-httpx{a} python3-idna{a} python3-importlib-resources{a} python3-iniconfig{a} python3-jsonschema{a} python3-jsonschema-specifications{a} python3-kiwisolver{a} python3-lib2to3{a} python3-lxml{a} python3-lz4{a} python3-markdown-it{a} python3-matplotlib{a} python3-mdurl{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-numpy{a} python3-optlang{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pathspec{a} python3-pil{a} python3-pil.imagetk{a} python3-pip{a} python3-pipdeptree{a} python3-pkg-resources{a} python3-pluggy{a} python3-pydantic{a} python3-pygments{a} python3-pyparsing{a} python3-pytest{a} python3-pytest-benchmark{a} python3-pytest-mock{a} python3-referencing{a} python3-requests{a} python3-rich{a} python3-rpds-py{a} python3-ruamel.yaml{a} python3-ruamel.yaml.clib{a} python3-sbml5{a} python3-scipy{a} python3-setuptools{a} python3-setuptools-scm{a} python3-simplejson{a} python3-six{a} python3-sniffio{a} python3-swiglpk{a} python3-sympy{a} python3-tabulate{a} python3-tk{a} python3-trove-classifiers{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-unicodedata2{a} python3-urllib3{a} python3-wheel{a} python3-zipp{a} python3.11{a} python3.11-dev{a} python3.11-minimal{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: curl isympy-common javascript-common libarchive-cpio-perl libglib2.0-data libgraphblas-dev libltdl-dev libmail-sendmail-perl lynx python3-bottleneck python3-bs4 python3-cssselect python3-elasticsearch python3-freezegun python3-graphviz python3-html5lib python3-jinja2 python3-json-pointer python3-numba python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pygal python3-rfc3987 python3-tables python3-uritemplate python3-webcolors shared-mime-info wget xdg-user-dirs 0 packages upgraded, 213 newly installed, 0 to remove and 0 not upgraded. Need to get 150 MB of archives. After unpacking 703 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libpython3.11-minimal amd64 3.11.9-1 [817 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 python3.11-minimal amd64 3.11.9-1 [1879 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.11.8-1 [26.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024a-4 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-4 [69.3 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-4 [167 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 libpython3.11-stdlib amd64 3.11.9-1 [1792 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 python3.11 amd64 3.11.9-1 [602 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.11.8-1 [9332 B] Get: 13 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.11.8-1 [27.4 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.2.1-3 [1360 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20240203 [158 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.1-1 [94.1 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.21-14 [496 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libtcl8.6 amd64 8.6.14+dfsg-1 [1034 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b4 [439 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libbsd0 amd64 0.12.2-1 [131 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-1 [144 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+23 [252 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 libxss1 amd64 1:1.2.3-1+b1 [17.0 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 libtk8.6 amd64 8.6.14-1 [784 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-7 [586 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 blt amd64 2.5.3+dfsg-7 [6024 B] Get: 53 http://deb.debian.org/debian unstable/main amd64 cython3 amd64 3.0.10+dfsg-5 [3571 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 61 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b3 [692 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 python3-lib2to3 all 3.12.3-1 [77.6 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 python3-distutils all 3.12.3-1 [131 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 68.1.2-2 [468 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20240422 [107 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 fonts-lyx all 2.4.0~RC4-1 [189 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libsuitesparseconfig7 amd64 1:7.7.0+dfsg-2 [22.4 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libamd3 amd64 1:7.7.0+dfsg-2 [39.0 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libblas-dev amd64 3.12.0-3 [159 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libbtf2 amd64 1:7.7.0+dfsg-2 [23.3 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libcamd3 amd64 1:7.7.0+dfsg-2 [36.0 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libccolamd3 amd64 1:7.7.0+dfsg-2 [37.9 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libcolamd3 amd64 1:7.7.0+dfsg-2 [31.3 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.1.0-1 [836 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libcholmod5 amd64 1:7.7.0+dfsg-2 [623 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libcxsparse4 amd64 1:7.7.0+dfsg-2 [82.3 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.20-1 [46.0 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libexpat1-dev amd64 2.6.2-1 [155 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.13-3+b1 [71.4 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.80.2-1 [1485 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.4.7-7+b1 [393 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libglpk40 amd64 5.0-1+b1 [397 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b1 [329 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b1 [640 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 libklu2 amd64 1:7.7.0+dfsg-2 [87.1 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 libldl3 amd64 1:7.7.0+dfsg-2 [23.0 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 libsuitesparse-mongoose3 amd64 1:7.7.0+dfsg-2 [45.1 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 libumfpack6 amd64 1:7.7.0+dfsg-2 [267 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 librbio4 amd64 1:7.7.0+dfsg-2 [38.5 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 libspqr4 amd64 1:7.7.0+dfsg-2 [140 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libspex3 amd64 1:7.7.0+dfsg-2 [55.9 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libparu0 amd64 1:7.7.0+dfsg-2 [61.3 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 liblapack-dev amd64 3.12.0-3 [4880 kB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libsuitesparse-dev amd64 1:7.7.0+dfsg-2 [1437 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libglpk-dev amd64 5.0-1+b1 [467 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 8.3.0-2+b1 [2214 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libimagequant0 amd64 2.18.0-1+b1 [35.3 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get: 112 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 7.2.6-7 [150 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1+b1 [29.1 kB] Get: 117 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.14-2+b1 [154 kB] Get: 118 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libopenjp2-7 amd64 2.5.0-2+b3 [190 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libpython3.11t64 amd64 3.11.9-1 [1960 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 libpython3.11-dev amd64 3.11.9-1 [4513 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.11.8-1 [9560 B] Get: 123 http://deb.debian.org/debian unstable/main amd64 libqhull-r8.0 amd64 2020.2-6+b1 [245 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 libraqm0 amd64 0.10.1-1+b1 [14.2 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 libsbml5t64 amd64 5.20.2+dfsg-7 [2102 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libsbml5-dev amd64 5.20.2+dfsg-7 [3145 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-4 [322 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [110 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 libwebpmux3 amd64 1.4.0-0.1 [123 kB] Get: 132 http://deb.debian.org/debian unstable/main amd64 libxslt1.1 amd64 1.1.35-1+b1 [232 kB] Get: 133 http://deb.debian.org/debian unstable/main amd64 python-matplotlib-data all 3.6.3-2 [2744 kB] Get: 134 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.6-2 [37.0 kB] Get: 135 http://deb.debian.org/debian unstable/main amd64 python3-sniffio all 1.3.0-2 [7076 B] Get: 136 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.11.0-1 [67.2 kB] Get: 137 http://deb.debian.org/debian unstable/main amd64 python3-anyio all 4.3.0-1 [56.5 kB] Get: 138 http://deb.debian.org/debian unstable/main amd64 python3-appdirs all 1.4.4-4 [12.5 kB] Get: 139 http://deb.debian.org/debian unstable/main amd64 python3-attr all 23.2.0-2 [65.5 kB] Get: 140 http://deb.debian.org/debian unstable/main amd64 python3-brotli amd64 1.1.0-2+b3 [312 kB] Get: 141 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2023.11.17-1 [155 kB] Get: 142 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 143 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer all 3.3.2-1 [51.6 kB] Get: 144 http://deb.debian.org/debian unstable/main amd64 python3-colorama all 0.4.6-4 [36.2 kB] Get: 145 http://deb.debian.org/debian unstable/main amd64 python3-click all 8.1.7-1 [94.0 kB] Get: 146 http://deb.debian.org/debian unstable/main amd64 python3-numpy amd64 1:1.26.4+ds-9 [5469 kB] Get: 147 http://deb.debian.org/debian unstable/main amd64 python3-contourpy amd64 1.0.7-3 [285 kB] Get: 148 http://deb.debian.org/debian unstable/main amd64 python3-cpuinfo all 9.0.0+git20221119-1 [23.2 kB] Get: 149 http://deb.debian.org/debian unstable/main amd64 python3-cycler all 0.12.1-1 [9496 B] Get: 150 http://deb.debian.org/debian unstable/main amd64 python3-six all 1.16.0-6 [16.3 kB] Get: 151 http://deb.debian.org/debian unstable/main amd64 python3-dateutil all 2.9.0-2 [79.4 kB] Get: 152 http://deb.debian.org/debian unstable/main amd64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 153 http://deb.debian.org/debian unstable/main amd64 python3-depinfo amd64 2.2.0-2 [11.5 kB] Get: 154 http://deb.debian.org/debian unstable/main amd64 python3.11-dev amd64 3.11.9-1 [501 kB] Get: 155 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.11.8-1 [26.1 kB] Get: 156 http://deb.debian.org/debian unstable/main amd64 python3-diskcache all 5.6.3-1 [34.4 kB] Get: 157 http://deb.debian.org/debian unstable/main amd64 python3-scipy amd64 1.11.4-9 [19.5 MB] Get: 158 http://deb.debian.org/debian unstable/main amd64 python3-ufolib2 all 0.16.0+dfsg1-1 [32.9 kB] Get: 159 http://deb.debian.org/debian unstable/main amd64 python3-mpmath all 1.3.0-1 [419 kB] Get: 160 http://deb.debian.org/debian unstable/main amd64 python3-sympy all 1.12-7 [3869 kB] Get: 161 http://deb.debian.org/debian unstable/main amd64 python3-tz all 2024.1-2 [30.9 kB] Get: 162 http://deb.debian.org/debian unstable/main amd64 python3-fs all 2.4.16-4 [95.4 kB] Get: 163 http://deb.debian.org/debian unstable/main amd64 python3-lxml amd64 5.2.1-1 [1995 kB] Get: 164 http://deb.debian.org/debian unstable/main amd64 python3-lz4 amd64 4.0.2+dfsg-1+b3 [25.5 kB] Get: 165 http://deb.debian.org/debian unstable/main amd64 python3-unicodedata2 amd64 15.1.0+ds-1+b1 [299 kB] Get: 166 http://deb.debian.org/debian unstable/main amd64 unicode-data all 15.1.0-1 [8547 kB] Get: 167 http://deb.debian.org/debian unstable/main amd64 python3-fonttools amd64 4.46.0-1 [1623 kB] Get: 168 http://deb.debian.org/debian unstable/main amd64 python3-h11 all 0.14.0-1 [50.1 kB] Get: 169 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 24.0-1 [45.5 kB] Get: 170 http://deb.debian.org/debian unstable/main amd64 python3-pathspec all 0.12.1-1 [28.1 kB] Get: 171 http://deb.debian.org/debian unstable/main amd64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 172 http://deb.debian.org/debian unstable/main amd64 python3-trove-classifiers all 2024.1.31-1 [9968 B] Get: 173 http://deb.debian.org/debian unstable/main amd64 python3-hatchling all 1.24.2-1 [53.2 kB] Get: 174 http://deb.debian.org/debian unstable/main amd64 python3-setuptools-scm all 8.0.4-2 [39.5 kB] Get: 175 http://deb.debian.org/debian unstable/main amd64 python3-hatch-vcs all 0.4.0-1 [8336 B] Get: 176 http://deb.debian.org/debian unstable/main amd64 python3-httpcore all 1.0.4-1 [44.5 kB] Get: 177 http://deb.debian.org/debian unstable/main amd64 python3-pygments all 2.17.2+dfsg-1 [818 kB] Get: 178 http://deb.debian.org/debian unstable/main amd64 python3-mdurl all 0.1.2-1 [9444 B] Get: 179 http://deb.debian.org/debian unstable/main amd64 python3-markdown-it all 3.0.0-2 [62.5 kB] Get: 180 http://deb.debian.org/debian unstable/main amd64 python3-rich all 13.7.1-1 [201 kB] Get: 181 http://deb.debian.org/debian unstable/main amd64 python3-httpx all 0.27.0-1 [76.8 kB] Get: 182 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.2.0-1 [59.9 kB] Get: 183 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 1.0.0-6 [6696 B] Get: 184 http://deb.debian.org/debian unstable/main amd64 python3-importlib-resources all 6.0.1-1 [21.7 kB] Get: 185 http://deb.debian.org/debian unstable/main amd64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 186 http://deb.debian.org/debian unstable/main amd64 python3-rpds-py amd64 0.12.0-3 [276 kB] Get: 187 http://deb.debian.org/debian unstable/main amd64 python3-referencing all 0.31.0-1 [22.2 kB] Get: 188 http://deb.debian.org/debian unstable/main amd64 python3-jsonschema-specifications all 2023.12.1-1 [8976 B] Get: 189 http://deb.debian.org/debian unstable/main amd64 python3-jsonschema all 4.19.2-2 [71.2 kB] Get: 190 http://deb.debian.org/debian unstable/main amd64 python3-kiwisolver amd64 1.4.5-1 [80.7 kB] Get: 191 http://deb.debian.org/debian unstable/main amd64 python3-pil amd64 10.3.0-2 [564 kB] Get: 192 http://deb.debian.org/debian unstable/main amd64 python3-tk amd64 3.12.3-1 [109 kB] Get: 193 http://deb.debian.org/debian unstable/main amd64 python3-pil.imagetk amd64 10.3.0-2 [79.5 kB] Get: 194 http://deb.debian.org/debian unstable/main amd64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 195 http://deb.debian.org/debian unstable/main amd64 python3-matplotlib amd64 3.6.3-2 [8167 kB] Get: 196 http://deb.debian.org/debian unstable/main amd64 python3-swiglpk amd64 5.0.10-1 [97.9 kB] Get: 197 http://deb.debian.org/debian unstable/main amd64 python3-optlang all 1.8.1-1 [82.4 kB] Get: 198 http://deb.debian.org/debian unstable/main amd64 python3-pandas-lib amd64 2.1.4+dfsg-8 [7882 kB] Get: 199 http://deb.debian.org/debian unstable/main amd64 python3-pandas all 2.1.4+dfsg-8 [3015 kB] Get: 200 http://deb.debian.org/debian unstable/main amd64 python3-wheel all 0.43.0-1 [52.5 kB] Get: 201 http://deb.debian.org/debian unstable/main amd64 python3-pip all 24.0+dfsg-2 [1517 kB] Get: 202 http://deb.debian.org/debian unstable/main amd64 python3-pipdeptree amd64 2.2.0-3 [20.6 kB] Get: 203 http://deb.debian.org/debian unstable/main amd64 python3-pydantic amd64 1.10.14-1 [3213 kB] Get: 204 http://deb.debian.org/debian unstable/main amd64 python3-pytest all 8.1.2-1 [246 kB] Get: 205 http://deb.debian.org/debian unstable/main amd64 python3-pytest-benchmark all 4.0.0-3 [43.4 kB] Get: 206 http://deb.debian.org/debian unstable/main amd64 python3-pytest-mock all 3.12.0-1.1 [17.6 kB] Get: 207 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 1.26.18-2 [116 kB] Get: 208 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.31.0+dfsg-2 [68.7 kB] Get: 209 http://deb.debian.org/debian unstable/main amd64 python3-ruamel.yaml.clib amd64 0.2.8+ds-1 [188 kB] Get: 210 http://deb.debian.org/debian unstable/main amd64 python3-ruamel.yaml all 0.18.6+ds-3 [145 kB] Get: 211 http://deb.debian.org/debian unstable/main amd64 python3-sbml5 amd64 5.20.2+dfsg-7 [3389 kB] Get: 212 http://deb.debian.org/debian unstable/main amd64 python3-simplejson amd64 3.19.2-1+b1 [69.4 kB] Get: 213 http://deb.debian.org/debian unstable/main amd64 python3-tabulate all 0.8.10-1 [38.8 kB] Fetched 150 MB in 6s (26.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (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 ... 19719 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.9-1_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.9-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.2-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.9-1_amd64.deb ... Unpacking python3.11-minimal (3.11.9-1) ... Setting up libpython3.11-minimal:amd64 (3.11.9-1) ... Setting up libexpat1:amd64 (2.6.2-1) ... Setting up python3.11-minimal (3.11.9-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20035 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.8-1_amd64.deb ... Unpacking python3-minimal (3.11.8-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../5-libreadline8t64_8.2-4_amd64.deb ... 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 (8.2-4) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../6-libpython3.11-stdlib_3.11.9-1_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.9-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.9-1_amd64.deb ... Unpacking python3.11 (3.11.9-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../8-libpython3-stdlib_3.11.8-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.8-1) ... Setting up python3-minimal (3.11.8-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21027 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.8-1_amd64.deb ... Unpacking python3 (3.11.8-1) ... Selecting previously unselected package sensible-utils. 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Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libdeflate0:amd64 (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libqhull-r8.0:amd64 (2020.2-6+b1) ... Setting up libldl3:amd64 (1:7.7.0+dfsg-2) ... Setting up file (1:5.45-3) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Jun 19 16:26:39 UTC 2025. Universal Time is now: Thu Jun 19 16:26:39 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... Setting up libbtf2:amd64 (1:7.7.0+dfsg-2) ... Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:amd64 (2.80.2-1) ... No schema files found: doing nothing. Setting up libblas3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b1) ... Setting up libexpat1-dev:amd64 (2.6.2-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libfribidi0:amd64 (1.0.13-3+b1) ... Setting up libimagequant0:amd64 (2.18.0-1+b1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.43-5) ... Setting up libtcl8.6:amd64 (8.6.14+dfsg-1) ... Setting up autopoint (0.21-14) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libltdl7:amd64 (2.4.7-7+b1) ... Setting up libgfortran5:amd64 (14.1.0-1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.4.0-0.1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libtiff6:amd64 (4.5.1+git230720-4) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libsuitesparseconfig7:amd64 (1:7.7.0+dfsg-2) ... Setting up libopenjp2-7:amd64 (2.5.0-2+b3) ... Setting up libsub-override-perl (0.10-1) ... Setting up netbase (6.4) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up python-matplotlib-data (3.6.3-2) ... Setting up openssl (3.2.1-3) ... Setting up libwebpmux3:amd64 (1.4.0-0.1) ... Setting up libbsd0:amd64 (0.12.2-1) ... Setting up readline-common (8.2-4) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3+b3) ... Setting up libblas-dev:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3+b1) ... Setting up liblapack3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.17.0-1) ... Setting up gettext (0.21-14+b1) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-2+b1) ... Setting up libamd3:amd64 (1:7.7.0+dfsg-2) ... Setting up libtool (2.4.7-7) ... Setting up libcolamd3:amd64 (1:7.7.0+dfsg-2) ... Setting up libsbml5t64:amd64 (5.20.2+dfsg-7) ... Setting up libspex3:amd64 (1:7.7.0+dfsg-2) ... Setting up libsuitesparse-mongoose3:amd64 (1:7.7.0+dfsg-2) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... Setting up libcxsparse4:amd64 (1:7.7.0+dfsg-2) ... Setting up libcamd3:amd64 (1:7.7.0+dfsg-2) ... Setting up libsbml5-dev (5.20.2+dfsg-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Setting up libglpk40:amd64 (5.0-1+b1) ... Setting up librbio4:amd64 (1:7.7.0+dfsg-2) ... Setting up liblapack-dev:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libjs-sphinxdoc (7.2.6-7) ... Setting up libccolamd3:amd64 (1:7.7.0+dfsg-2) ... Setting up libreadline8t64:amd64 (8.2-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-4) ... Setting up libxslt1.1:amd64 (1.1.35-1+b1) ... Setting up libx11-6:amd64 (2:1.8.7-1+b1) ... Setting up libharfbuzz0b:amd64 (8.3.0-2+b1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1+b1) ... Setting up libcholmod5:amd64 (1:7.7.0+dfsg-2) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b1) ... Setting up libspqr4:amd64 (1:7.7.0+dfsg-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.9-1) ... Setting up libpython3.11t64:amd64 (3.11.9-1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libklu2:amd64 (1:7.7.0+dfsg-2) ... Setting up libpython3.11-dev:amd64 (3.11.9-1) ... Setting up libraqm0:amd64 (0.10.1-1+b1) ... Setting up libumfpack6:amd64 (1:7.7.0+dfsg-2) ... Setting up libxss1:amd64 (1:1.2.3-1+b1) ... Setting up libpython3-stdlib:amd64 (3.11.8-1) ... Setting up python3.11 (3.11.9-1) ... Setting up libxft2:amd64 (2.3.6-1+b1) ... Setting up libpython3-dev:amd64 (3.11.8-1) ... Setting up python3.11-dev (3.11.9-1) ... Setting up libtk8.6:amd64 (8.6.14-1) ... Setting up debhelper (13.15.3) ... Setting up libparu0:amd64 (1:7.7.0+dfsg-2) ... Setting up python3 (3.11.8-1) ... Setting up python3-wheel (0.43.0-1) ... Setting up python3-sbml5 (5.20.2+dfsg-7) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-6) ... Setting up python3-simplejson (3.19.2-1+b1) ... Setting up python3-pil:amd64 (10.3.0-2) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.0-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up python3-certifi (2023.11.17-1) ... Setting up python3-brotli (1.1.0-2+b3) ... Setting up python3-mdurl (0.1.2-1) ... Setting up python3-cycler (0.12.1-1) ... Setting up python3-kiwisolver (1.4.5-1) ... Setting up python3-idna (3.6-2) ... Setting up cython3 (3.0.10+dfsg-5) ... Setting up python3-h11 (0.14.0-1) ... Setting up python3-typing-extensions (4.11.0-1) ... Setting up python3-pip (24.0+dfsg-2) ... Setting up python3-cpuinfo (9.0.0+git20221119-1) ... Setting up python3-urllib3 (1.26.18-2) ... Setting up python3-pluggy (1.5.0-1) ... Setting up python3-markdown-it (3.0.0-2) ... Setting up python3-rpds-py (0.12.0-3) ... Setting up python3-trove-classifiers (2024.1.31-1) ... Setting up python3-lxml:amd64 (5.2.1-1) ... Setting up python3-dateutil (2.9.0-2) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python3-diskcache (5.6.3-1) ... Setting up python3-pathspec (0.12.1-1) ... Setting up python3-lib2to3 (3.12.3-1) ... Setting up python3-pipdeptree (2.2.0-3) ... Setting up python3-appdirs (1.4.4-4) ... Setting up python3-swiglpk (5.0.10-1) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.12.3-1) ... Setting up python3-more-itertools (10.2.0-1) ... Setting up python3-httpcore (1.0.4-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-sniffio (1.3.0-2) ... Setting up python3-sympy (1.12-7) ... Setting up python3-attr (23.2.0-2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-7) ... Setting up python3-setuptools (68.1.2-2) ... Setting up libsuitesparse-dev:amd64 (1:7.7.0+dfsg-2) ... Setting up python3-anyio (4.3.0-1) ... Setting up python3-colorama (0.4.6-4) ... Setting up python3-lz4 (4.0.2+dfsg-1+b3) ... Setting up python3-charset-normalizer (3.3.2-1) ... Setting up python3-pytest (8.1.2-1) ... Setting up python3-unicodedata2 (15.1.0+ds-1+b1) ... Setting up blt (2.5.3+dfsg-7) ... Setting up python3-ruamel.yaml.clib:amd64 (0.2.8+ds-1) ... Setting up python3-tabulate (0.8.10-1) ... Setting up python3-tk:amd64 (3.12.3-1) ... Setting up python3-zipp (1.0.0-6) ... Setting up python3-click (8.1.7-1) ... Setting up python3-setuptools-scm (8.0.4-2) ... Setting up python3-fs (2.4.16-4) ... Setting up python3-pygments (2.17.2+dfsg-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-pil.imagetk:amd64 (10.3.0-2) ... Setting up libglpk-dev:amd64 (5.0-1+b1) ... Setting up python3-pydantic (1.10.14-1) ... Setting up python3-dev (3.11.8-1) ... Setting up python3-requests (2.31.0+dfsg-2) ... Setting up python3-depinfo (2.2.0-2) ... Setting up python3-numpy (1:1.26.4+ds-9) ... Setting up python3-ruamel.yaml (0.18.6+ds-3) ... Setting up python3-pytest-mock (3.12.0-1.1) ... Setting up python3-contourpy (1.0.7-3) ... Setting up python3-hatchling (1.24.2-1) ... Setting up python3-hatch-vcs (0.4.0-1) ... Setting up python3-referencing (0.31.0-1) ... Setting up python3-optlang (1.8.1-1) ... Setting up python3-pytest-benchmark (4.0.0-3) ... Setting up dh-python (6.20240422) ... Setting up python3-scipy (1.11.4-9) ... Setting up python3-importlib-resources (6.0.1-1) ... Setting up python3-rich (13.7.1-1) ... Setting up python3-pandas-lib:amd64 (2.1.4+dfsg-8) ... Setting up python3-pandas (2.1.4+dfsg-8) ... Setting up python3-httpx (0.27.0-1) ... Setting up python3-jsonschema-specifications (2023.12.1-1) ... Setting up python3-jsonschema (4.19.2-2) ... Setting up python3-fonttools (4.46.0-1) ... Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... Setting up python3-matplotlib (3.6.3-2) ... Processing triggers for libc-bin (2.38-11) ... Processing triggers for ca-certificates (20240203) ... 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/1848537/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/1848537/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/python-cobra-0.29.0/ && 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 > ../python-cobra_0.29.0-2_source.changes dpkg-buildpackage: info: source package python-cobra dpkg-buildpackage: info: source version 0.29.0-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/python-cobra-0.29.0' dh_auto_clean I: pybuild base:311: python3.11 setup.py clean running clean removing '/build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -f cobra/solvers/cglpk.c rm -rf .pytest_cache make[1]: Leaving directory '/build/reproducible-path/python-cobra-0.29.0' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.11 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra copying src/cobra/exceptions.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra copying src/cobra/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util copying src/cobra/util/util.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util copying src/cobra/util/process_pool.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util copying src/cobra/util/context.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util copying src/cobra/util/array.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util copying src/cobra/util/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util copying src/cobra/util/solver.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium copying src/cobra/medium/boundary_types.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium copying src/cobra/medium/minimal_medium.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium copying src/cobra/medium/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium copying src/cobra/medium/annotations.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/loopless.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/gapfilling.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/reaction.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/helpers.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/room.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/parsimonious.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/phenotype_phase_plane.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/moma.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/geometric.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/fastcc.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/variability.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis copying src/cobra/flux_analysis/deletion.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling copying src/cobra/sampling/achr.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling copying src/cobra/sampling/optgp.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling copying src/cobra/sampling/sampling.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling copying src/cobra/sampling/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling copying src/cobra/sampling/core.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling copying src/cobra/sampling/hr_sampler.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation copying src/cobra/manipulation/annotate.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation copying src/cobra/manipulation/delete.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation copying src/cobra/manipulation/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation copying src/cobra/manipulation/modify.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation copying src/cobra/manipulation/validate.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/object.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/dictlist.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/metabolite.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/configuration.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/reaction.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/singleton.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/solution.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/formula.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/model.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/species.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/gene.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core copying src/cobra/core/group.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary copying src/cobra/summary/reaction_summary.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary copying src/cobra/summary/summary.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary copying src/cobra/summary/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary copying src/cobra/summary/metabolite_summary.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary copying src/cobra/summary/model_summary.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io copying src/cobra/io/mat.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io copying src/cobra/io/sbml.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io copying src/cobra/io/json.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io copying src/cobra/io/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io copying src/cobra/io/dict.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io copying src/cobra/io/yaml.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/data/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data creating /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web copying src/cobra/io/web/abstract_model_repository.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web copying src/cobra/io/web/bigg_models_repository.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web copying src/cobra/io/web/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web copying src/cobra/io/web/load.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web copying src/cobra/io/web/biomodels_repository.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web copying src/cobra/io/web/cobrapy_repository.py -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web copying src/cobra/data/mini.mat -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/data/textbook.xml.gz -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/data/mini_cobra.xml -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/data/salmonella.xml.gz -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/data/mini.yml -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/data/mini.json -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/data/iJO1366.xml.gz -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data copying src/cobra/io/schema_v1.json -> /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build; python3.11 -m pytest tests ============================= test session starts ============================== platform linux -- Python 3.11.9, pytest-8.1.2, pluggy-1.5.0 benchmark: 4.0.0 (defaults: timer=time.perf_counter disable_gc=False min_rounds=5 min_time=0.000005 max_time=1.0 calibration_precision=10 warmup=False warmup_iterations=100000) rootdir: /build/reproducible-path/python-cobra-0.29.0 configfile: tox.ini plugins: benchmark-4.0.0, mock-3.12.0, anyio-4.3.0 collected 551 items tests/test_core/test_configuration.py ...... [ 1%] tests/test_core/test_core_reaction.py ..........ss...................... [ 7%] ...................x....... [ 12%] tests/test_core/test_dictlist.py ...................... [ 16%] tests/test_core/test_formula.py ..... [ 17%] tests/test_core/test_gene.py . [ 17%] tests/test_core/test_gpr.py .....................x..x................... [ 25%] .......................... [ 29%] tests/test_core/test_group.py .. [ 30%] tests/test_core/test_metabolite.py ...ss.ss. [ 31%] tests/test_core/test_model.py .......................................... [ 39%] ...........s..s.ss. [ 43%] tests/test_core/test_solution.py .ss [ 43%] tests/test_flux_analysis/test_deletion.py ....s..... [ 45%] tests/test_flux_analysis/test_fastcc.py .... [ 46%] tests/test_flux_analysis/test_geometric.py .. [ 46%] tests/test_flux_analysis/test_moma.py . [ 46%] tests/test_flux_analysis/test_parsimonious.py .. [ 47%] tests/test_flux_analysis/test_reaction.py . [ 47%] tests/test_flux_analysis/test_room.py .... [ 47%] tests/test_flux_analysis/test_variability.py ....... [ 49%] tests/test_flux_analysis/test_deletion.py sss [ 49%] tests/test_flux_analysis/test_moma.py s [ 49%] tests/test_flux_analysis/test_deletion.py ...... [ 50%] tests/test_flux_analysis/test_gapfilling.py . [ 51%] tests/test_flux_analysis/test_helpers.py ... [ 51%] tests/test_flux_analysis/test_loopless.py ..... [ 52%] tests/test_flux_analysis/test_phenotype_phase_plane.py ...... [ 53%] tests/test_flux_analysis/test_variability.py ....... [ 54%] tests/test_io/test_annotation.py .. [ 55%] tests/test_io/test_annotation_format.py .. [ 55%] tests/test_io/test_io_order.py ........................... [ 60%] tests/test_io/test_json.py .... [ 61%] tests/test_io/test_mat.py ............... [ 64%] tests/test_io/test_notes.py . [ 64%] tests/test_io/test_pickle.py .. [ 64%] tests/test_io/test_sbml.py .ssss............xxxx.x.x..s............. [ 72%] tests/test_io/test_web/test_load.py ..ssss. [ 73%] tests/test_io/test_yaml.py .x [ 73%] tests/test_manipulation/test_annotate.py . [ 73%] tests/test_manipulation/test_delete.py ....... [ 75%] tests/test_manipulation/test_modify.py ... [ 75%] tests/test_manipulation/test_validate.py .. [ 76%] tests/test_medium/test_boundary_types.py ......... [ 77%] tests/test_medium/test_minimal_medium.py .......... [ 79%] tests/test_sampling/test_achr.py ...... [ 80%] tests/test_sampling/test_optgp.py ...... [ 81%] tests/test_sampling/test_sampling.py .......... [ 83%] tests/test_summary/test_metabolite_summary.py ................. [ 86%] tests/test_summary/test_model_summary.py ............... [ 89%] tests/test_summary/test_reaction_summary.py .................... [ 92%] tests/test_util/test_array.py .. [ 93%] tests/test_util/test_context.py ... [ 93%] tests/test_util/test_process_pool.py ............... [ 96%] tests/test_util/test_solver.py ..............s [ 99%] tests/test_util/test_util.py ...x [100%] =============================== warnings summary =============================== .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_and_gpr[a AND b-2-gpr_genes2-a and b] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_and_b_strs] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists1] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists2] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists3] /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a AND b'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_or_gpr[a OR b-2-gpr_genes2-a or b] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_as_symbolic_boolean[a OR b-symbolic_gpr2] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_or_b_strs] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists4] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists5] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists6] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_from_symbolic[a OR b-symbolic_gpr5] /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a OR b'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_complicated_gpr[(a OR b) AND c] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_as_symbolic_boolean[(a OR b) AND c-symbolic_gpr6] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_b_c_or_and_strs] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists3] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists6] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists8] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists9] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_from_symbolic[(a OR b) AND c-symbolic_gpr9] /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule '(a OR b) AND c'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_that_needs_two_replacements /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule '(591001.3.peg.1891 AND 591001.3.peg.1892 AND 591001.3.peg.1893)'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_and_b_strs] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists1] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists2] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists3] /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'b AND a'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_or_b_strs] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists4] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists5] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists6] /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'b OR a'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_b_c_or_strs] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists1] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists4] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists7] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists8] /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a OR b or c'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_b_c_and_strs] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists2] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists5] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists7] .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists9] /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a AND b and c'. warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_model.py::test_reaction_delete .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_model.py::test_reaction_delete /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/reaction.py:879: DeprecationWarning: delete is deprecated. Use reaction.remove_from_model instead warn( .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_model.py::test_group_loss_of_elements .pybuild/cpython3_3.11_cobra/build/tests/test_flux_analysis/test_gapfilling.py::test_gapfilling /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/group.py:147: UserWarning: need to pass in a list warn("need to pass in a list") .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_model.py::test_change_objective .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_model.py::test_change_objective .pybuild/cpython3_3.11_cobra/build/tests/test_core/test_model.py::test_change_objective /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/reaction.py:761: DeprecationWarning: Please use reaction.flux instead. warn("Please use reaction.flux instead.", DeprecationWarning) .pybuild/cpython3_3.11_cobra/build/tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion .pybuild/cpython3_3.11_cobra/build/tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/tests/test_flux_analysis/test_deletion.py:438: FutureWarning: Calling float on a single element Series is deprecated and will raise a TypeError in the future. Use float(ser.iloc[0]) instead assert math.isnan(sol.growth) .pybuild/cpython3_3.11_cobra/build/tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion .pybuild/cpython3_3.11_cobra/build/tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/tests/test_flux_analysis/test_deletion.py:439: FutureWarning: Calling float on a single element Series is deprecated and will raise a TypeError in the future. Use float(ser.iloc[0]) instead assert math.isnan(sol_one.growth) .pybuild/cpython3_3.11_cobra/build/tests/test_io/test_json.py: 1 warning .pybuild/cpython3_3.11_cobra/build/tests/test_io/test_mat.py: 5 warnings .pybuild/cpython3_3.11_cobra/build/tests/test_io/test_pickle.py: 1 warning .pybuild/cpython3_3.11_cobra/build/tests/test_io/test_sbml.py: 9 warnings .pybuild/cpython3_3.11_cobra/build/tests/test_io/test_yaml.py: 1 warning /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/solver.py:554: UserWarning: Solver status is 'infeasible'. warn(f"Solver status is '{status}'.", UserWarning) .pybuild/cpython3_3.11_cobra/build/tests/test_io/test_yaml.py::test_save_yaml_model /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/tests/test_io/test_yaml.py:29: PendingDeprecationWarning: you should no longer specify 'unsafe'. For **dumping only** use yaml=YAML(typ='full') yaml = YAML(typ="unsafe") .pybuild/cpython3_3.11_cobra/build/tests/test_medium/test_boundary_types.py: 96 warnings /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/boundary_types.py:97: FutureWarning: Series.__getitem__ treating keys as positions is deprecated. In a future version, integer keys will always be treated as labels (consistent with DataFrame behavior). To access a value by position, use `ser.iloc[pos]` return most[0] .pybuild/cpython3_3.11_cobra/build/tests/test_medium/test_boundary_types.py::test_find_external_compartment_multi .pybuild/cpython3_3.11_cobra/build/tests/test_medium/test_boundary_types.py::test_find_external_compartment_multi .pybuild/cpython3_3.11_cobra/build/tests/test_medium/test_boundary_types.py::test_find_external_compartment_multi /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/boundary_types.py:74: FutureWarning: Series.__getitem__ treating keys as positions is deprecated. In a future version, integer keys will always be treated as labels (consistent with DataFrame behavior). To access a value by position, use `ser.iloc[pos]` compartment = most[matches[most]][0] .pybuild/cpython3_3.11_cobra/build/tests/test_util/test_process_pool.py::test_with_context /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/process_pool.py:72: PytestMockWarning: Mocks returned by pytest-mock do not need to be used as context managers. The mocker fixture automatically undoes mocking at the end of a test. This warning can be ignored if it was triggered by mocking a context manager. https://pytest-mock.readthedocs.io/en/latest/remarks.html#usage-as-context-manager self._pool.__enter__() -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -------------------------------------------------------------------------------------------------------------------------- benchmark: 31 tests --------------------------------------------------------------------------------------------------------------------------- Name (time in us) Min Max Mean StdDev Median IQR Outliers OPS Rounds Iterations -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- test_subtract_metabolite_benchmark[gurobi] 4.7670 (1.0) 3,652.5829 (168.67) 9.9676 (1.43) 82.7730 (53.24) 7.9023 (1.01) 0.1378 (1.0) 2;577 100,324.5925 (0.70) 2467 1 test_subtract_metabolite_benchmark[cplex] 4.8270 (1.01) 21.6551 (1.0) 6.9492 (1.0) 1.5548 (1.0) 7.8615 (1.0) 2.9141 (21.14) 1244;11 143,900.5803 (1.0) 3420 1 test_subtract_metabolite_benchmark[glpk] 7.6527 (1.61) 5,343.4200 (246.75) 10.7008 (1.54) 108.9190 (70.05) 7.9961 (1.02) 0.9185 (6.66) 1;32 93,450.6812 (0.65) 2400 1 test_achr_sample_benchmark 330.1194 (69.25) 2,790.6913 (128.87) 571.0012 (82.17) 254.0184 (163.38) 519.8980 (66.13) 20.5557 (149.13) 34;75 1,751.3097 (0.01) 706 1 test_change_objective_benchmark[optlang-glpk] 350.2420 (73.47) 19,331.9027 (892.72) 1,035.7762 (149.05) 1,761.8549 (>1000.0) 503.4064 (64.03) 109.3051 (793.01) 153;263 965.4596 (0.01) 2128 1 test_optgp_sample_benchmark 429.0692 (90.01) 35,376.3462 (>1000.0) 1,361.1417 (195.87) 3,151.3972 (>1000.0) 583.0999 (74.17) 64.8948 (470.81) 53;153 734.6774 (0.01) 840 1 test_loopless_benchmark_after 1,876.5237 (393.65) 8,537.1602 (394.23) 3,296.8539 (474.42) 1,861.1012 (>1000.0) 2,139.5376 (272.15) 1,944.0376 (>1000.0) 16;7 303.3195 (0.00) 84 1 test_minimal_medium_linear_benchmark 9,582.5009 (>1000.0) 31,951.5080 (>1000.0) 14,993.9467 (>1000.0) 5,894.8629 (>1000.0) 12,079.7323 (>1000.0) 6,782.8009 (>1000.0) 6;2 66.6936 (0.00) 46 1 test_minimal_medium_mip_benchmark 11,321.0506 (>1000.0) 54,250.9211 (>1000.0) 16,306.9275 (>1000.0) 12,631.6359 (>1000.0) 11,413.0159 (>1000.0) 467.9409 (>1000.0) 2;2 61.3236 (0.00) 13 1 test_loopless_benchmark_before 11,537.1710 (>1000.0) 35,829.7960 (>1000.0) 17,077.7516 (>1000.0) 5,923.7003 (>1000.0) 15,389.6268 (>1000.0) 8,500.4317 (>1000.0) 9;2 58.5557 (0.00) 56 1 test_deepcopy_benchmark 66,765.4700 (>1000.0) 132,398.2840 (>1000.0) 91,932.3580 (>1000.0) 26,598.7644 (>1000.0) 78,966.7063 (>1000.0) 44,408.6236 (>1000.0) 2;0 10.8776 (0.00) 8 1 test_copy_benchmark[optlang-glpk] 69,758.7212 (>1000.0) 203,879.3028 (>1000.0) 130,437.5660 (>1000.0) 53,265.9954 (>1000.0) 117,117.1293 (>1000.0) 96,401.3590 (>1000.0) 3;0 7.6665 (0.00) 6 1 test_gpr_equality_benchmark 72,531.1600 (>1000.0) 208,328.0142 (>1000.0) 103,729.8901 (>1000.0) 37,863.1022 (>1000.0) 89,210.4115 (>1000.0) 26,662.5502 (>1000.0) 1;1 9.6404 (0.00) 12 1 test_single_reaction_deletion_benchmark[glpk] 80,304.7130 (>1000.0) 126,060.2647 (>1000.0) 96,662.9868 (>1000.0) 15,825.8069 (>1000.0) 90,894.6665 (>1000.0) 19,241.0056 (>1000.0) 3;0 10.3452 (0.00) 10 1 test_fastcc_benchmark[glpk] 137,632.4990 (>1000.0) 696,422.6593 (>1000.0) 268,471.0725 (>1000.0) 178,199.4086 (>1000.0) 216,356.0311 (>1000.0) 80,577.6720 (>1000.0) 1;1 3.7248 (0.00) 8 1 test_add_metabolite_benchmark[cplex] 140,789.9768 (>1000.0) 310,670.2641 (>1000.0) 199,164.3381 (>1000.0) 70,501.2387 (>1000.0) 172,959.3328 (>1000.0) 100,480.9013 (>1000.0) 1;0 5.0210 (0.00) 5 1 test_add_metabolite_benchmark[gurobi] 157,967.9442 (>1000.0) 518,651.6466 (>1000.0) 312,160.5538 (>1000.0) 140,904.2860 (>1000.0) 306,118.1391 (>1000.0) 205,854.9493 (>1000.0) 2;0 3.2035 (0.00) 5 1 test_optgp_init_benchmark 197,117.5238 (>1000.0) 369,904.3416 (>1000.0) 288,969.6620 (>1000.0) 74,441.3181 (>1000.0) 296,326.0110 (>1000.0) 132,684.9059 (>1000.0) 2;0 3.4606 (0.00) 5 1 test_achr_init_benchmark 218,258.9001 (>1000.0) 424,364.0942 (>1000.0) 324,382.6075 (>1000.0) 73,681.7353 (>1000.0) 321,185.0226 (>1000.0) 101,539.7720 (>1000.0) 2;0 3.0828 (0.00) 6 1 test_add_metabolite_benchmark[glpk] 226,410.4080 (>1000.0) 433,076.4753 (>1000.0) 287,948.2716 (>1000.0) 79,471.3940 (>1000.0) 253,717.7471 (>1000.0) 91,245.5805 (>1000.0) 1;0 3.4728 (0.00) 6 1 test_double_gene_deletion_benchmark 304,643.8051 (>1000.0) 459,949.1223 (>1000.0) 368,616.1405 (>1000.0) 81,612.1642 (>1000.0) 312,002.5229 (>1000.0) 147,899.3235 (>1000.0) 2;0 2.7128 (0.00) 5 1 test_flux_variability_loopless_benchmark[glpk] 349,889.4316 (>1000.0) 776,266.2419 (>1000.0) 644,604.1709 (>1000.0) 177,860.5399 (>1000.0) 726,231.7059 (>1000.0) 224,550.5225 (>1000.0) 1;0 1.5513 (0.00) 5 1 test_pfba_benchmark[glpk] 483,537.0891 (>1000.0) 800,998.0167 (>1000.0) 614,495.5439 (>1000.0) 119,134.8264 (>1000.0) 609,694.5801 (>1000.0) 142,371.1260 (>1000.0) 2;0 1.6274 (0.00) 5 1 test_gpr_symbolism_benchmark 541,598.3000 (>1000.0) 917,592.9143 (>1000.0) 654,857.9460 (>1000.0) 151,779.7899 (>1000.0) 621,362.0887 (>1000.0) 146,428.0722 (>1000.0) 1;0 1.5270 (0.00) 5 1 test_flux_variability_benchmark[glpk] 568,068.6878 (>1000.0) 952,343.7088 (>1000.0) 711,550.6265 (>1000.0) 172,699.6915 (>1000.0) 621,287.9568 (>1000.0) 287,458.9055 (>1000.0) 1;0 1.4054 (0.00) 5 1 test_single_gene_deletion_fba_benchmark[glpk] 787,189.9349 (>1000.0) 1,126,680.9939 (>1000.0) 920,603.9517 (>1000.0) 146,538.6519 (>1000.0) 842,550.9920 (>1000.0) 233,063.6118 (>1000.0) 1;0 1.0862 (0.00) 5 1 test_single_gene_deletion_linear_moma_benchmark[glpk] 881,928.3992 (>1000.0) 4,121,944.2361 (>1000.0) 1,680,484.2855 (>1000.0) 1,376,191.9135 (>1000.0) 1,200,433.1141 (>1000.0) 1,091,900.1861 (>1000.0) 1;1 0.5951 (0.00) 5 1 test_geometric_fba_benchmark[glpk] 936,755.3461 (>1000.0) 1,898,833.9272 (>1000.0) 1,292,225.8328 (>1000.0) 362,435.8235 (>1000.0) 1,222,062.7312 (>1000.0) 345,559.8733 (>1000.0) 1;0 0.7739 (0.00) 5 1 test_copy_benchmark_large_model[optlang-glpk] 1,041,487.1164 (>1000.0) 3,312,612.6411 (>1000.0) 1,994,925.0492 (>1000.0) 842,298.4646 (>1000.0) 1,803,137.1180 (>1000.0) 965,872.7302 (>1000.0) 2;0 0.5013 (0.00) 5 1 test_single_gene_deletion_linear_room_benchmark[glpk] 1,219,008.8378 (>1000.0) 1,762,952.9960 (>1000.0) 1,537,229.1882 (>1000.0) 217,214.6279 (>1000.0) 1,502,172.9469 (>1000.0) 310,752.3043 (>1000.0) 2;0 0.6505 (0.00) 5 1 test_double_reaction_deletion_benchmark 1,957,987.7239 (>1000.0) 2,514,478.4432 (>1000.0) 2,293,704.4170 (>1000.0) 241,028.3077 (>1000.0) 2,358,774.8599 (>1000.0) 410,481.6139 (>1000.0) 1;0 0.4360 (0.00) 5 1 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Legend: Outliers: 1 Standard Deviation from Mean; 1.5 IQR (InterQuartile Range) from 1st Quartile and 3rd Quartile. OPS: Operations Per Second, computed as 1 / Mean ==== 513 passed, 27 skipped, 11 xfailed, 172 warnings in 399.62s (0:06:39) ===== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running install_lib creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11 creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/.benchmarks creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/util.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/process_pool.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/context.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/array.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/solver.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/__pycache__/solver.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/__pycache__/array.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/__pycache__/process_pool.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/__pycache__/util.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/util/__pycache__/context.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/exceptions.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/boundary_types.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/minimal_medium.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/annotations.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/__pycache__/minimal_medium.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/__pycache__/annotations.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/medium/__pycache__/boundary_types.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/__pycache__ creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/loopless.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/gapfilling.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/reaction.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/helpers.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/room.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/parsimonious.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/phenotype_phase_plane.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/moma.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/geometric.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/fastcc.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/loopless.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/helpers.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/gapfilling.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/deletion.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/room.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/moma.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/variability.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/phenotype_phase_plane.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/fastcc.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/parsimonious.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/geometric.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/__pycache__/reaction.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/variability.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/flux_analysis/deletion.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/achr.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/optgp.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/sampling.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/core.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/hr_sampler.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/__pycache__/sampling.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/__pycache__/core.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/__pycache__/achr.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/__pycache__/hr_sampler.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/sampling/__pycache__/optgp.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__pycache__ creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/annotate.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/delete.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/modify.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/__pycache__/annotate.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/__pycache__/validate.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/__pycache__/delete.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/__pycache__/modify.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/manipulation/validate.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/object.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/dictlist.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/metabolite.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/configuration.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/reaction.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/singleton.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/solution.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/formula.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/model.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/species.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/gene.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/group.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/gene.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/solution.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/model.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/singleton.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/dictlist.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/species.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/object.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/formula.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/metabolite.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/configuration.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/reaction.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/core/__pycache__/group.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__pycache__ creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/reaction_summary.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/summary.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/__pycache__/metabolite_summary.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/__pycache__/reaction_summary.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/__pycache__/model_summary.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/__pycache__/summary.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/metabolite_summary.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/summary/model_summary.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/mat.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/sbml.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/schema_v1.json -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/abstract_model_repository.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/bigg_models_repository.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/load.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/biomodels_repository.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/cobrapy_repository.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/__pycache__/abstract_model_repository.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/__pycache__/biomodels_repository.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/__pycache__/load.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/__pycache__/cobrapy_repository.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/web/__pycache__/bigg_models_repository.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/json.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/dict.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/yaml.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/__pycache__/json.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/__pycache__/yaml.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/__pycache__/mat.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/__pycache__/sbml.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/io/__pycache__/dict.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__pycache__ creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/__pycache__/exceptions.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/__pycache__ creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/mini.mat -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/textbook.xml.gz -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/mini_cobra.xml -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/salmonella.xml.gz -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/mini.yml -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/mini.json -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/__init__.py -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/iJO1366.xml.gz -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data creating /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data/__pycache__ copying /build/reproducible-path/python-cobra-0.29.0/.pybuild/cpython3_3.11_cobra/build/cobra/data/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data/__pycache__ byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/util.py to util.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/process_pool.py to process_pool.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/context.py to context.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/array.py to array.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/util/solver.py to solver.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/exceptions.py to exceptions.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/boundary_types.py to boundary_types.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/minimal_medium.py to minimal_medium.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/medium/annotations.py to annotations.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/loopless.py to loopless.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/gapfilling.py to gapfilling.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/reaction.py to reaction.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/helpers.py to helpers.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/room.py to room.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/parsimonious.py to parsimonious.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/phenotype_phase_plane.py to phenotype_phase_plane.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/moma.py to moma.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/geometric.py to geometric.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/fastcc.py to fastcc.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/variability.py to variability.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/flux_analysis/deletion.py to deletion.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/achr.py to achr.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/optgp.py to optgp.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/sampling.py to sampling.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/core.py to core.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/sampling/hr_sampler.py to hr_sampler.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/annotate.py to annotate.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/delete.py to delete.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/modify.py to modify.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/manipulation/validate.py to validate.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/object.py to object.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/dictlist.py to dictlist.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/metabolite.py to metabolite.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/configuration.py to configuration.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/reaction.py to reaction.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/singleton.py to singleton.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/solution.py to solution.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/formula.py to formula.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/model.py to model.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/species.py to species.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/gene.py to gene.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/core/group.py to group.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/reaction_summary.py to reaction_summary.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/summary.py to summary.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/metabolite_summary.py to metabolite_summary.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/summary/model_summary.py to model_summary.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/mat.py to mat.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/sbml.py to sbml.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/abstract_model_repository.py to abstract_model_repository.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/bigg_models_repository.py to bigg_models_repository.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/load.py to load.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/biomodels_repository.py to biomodels_repository.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/web/cobrapy_repository.py to cobrapy_repository.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/json.py to json.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/dict.py to dict.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/io/yaml.py to yaml.cpython-311.pyc byte-compiling /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra/data/__init__.py to __init__.cpython-311.pyc running install_egg_info running egg_info creating src/cobra.egg-info writing src/cobra.egg-info/PKG-INFO writing dependency_links to src/cobra.egg-info/dependency_links.txt writing requirements to src/cobra.egg-info/requires.txt writing top-level names to src/cobra.egg-info/top_level.txt writing manifest file 'src/cobra.egg-info/SOURCES.txt' reading manifest file 'src/cobra.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'src/cobra.egg-info/SOURCES.txt' Copying src/cobra.egg-info to /build/reproducible-path/python-cobra-0.29.0/debian/python3-cobra/usr/lib/python3.11/dist-packages/cobra-0.29.0.egg-info Skipping SOURCES.txt running install_scripts debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/python-cobra-0.29.0' dh_install -X update_pickles.py --package=python-cobra-data dh_install --remaining-packages find debian -name __pycache__ | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/python-cobra-0.29.0' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 pydist:302: Cannot find package that provides python_libsbml. Please add package that provides it to Build-Depends or add "python_libsbml python3-libsbml" line to debian/py3dist-overrides or add proper dependency to Depends by hand and ignore this info. dh_installsystemduser -O--buildsystem=pybuild dh_lintian -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: Depends field of package python3-cobra: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python-cobra-data' in '../python-cobra-data_0.29.0-2_all.deb'. dpkg-deb: building package 'python3-cobra' in '../python3-cobra_0.29.0-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../python-cobra_0.29.0-2_amd64.buildinfo dpkg-genchanges --build=binary -O../python-cobra_0.29.0-2_amd64.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: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/1848537/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/1848537/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/1848537 and its subdirectories I: Current time: Fri Jun 20 06:36:40 +14 2025 I: pbuilder-time-stamp: 1750351000