0s autopkgtest [19:58:53]: starting date and time: 2024-03-20 19:58:53+0000 0s autopkgtest [19:58:53]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [19:58:53]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.lhry5kt6/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:libsbml --apt-upgrade python-cobra --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=libsbml/5.20.2+dfsg-2.1build3 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-18.secgroup --name adt-noble-arm64-python-cobra-20240320-195853-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 75s autopkgtest [20:00:08]: testbed dpkg architecture: arm64 75s autopkgtest [20:00:08]: testbed apt version: 2.7.12 75s autopkgtest [20:00:08]: @@@@@@@@@@@@@@@@@@@@ test bed setup 76s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 76s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [53.9 kB] 76s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [502 kB] 76s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 76s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3808 kB] 77s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [698 kB] 77s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 77s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [41.7 kB] 77s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 77s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [4228 kB] 77s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 77s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [67.6 kB] 77s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 78s Fetched 9534 kB in 2s (5183 kB/s) 79s Reading package lists... 81s Reading package lists... 82s Building dependency tree... 82s Reading state information... 82s Calculating upgrade... 82s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 82s Reading package lists... 83s Building dependency tree... 83s Reading state information... 83s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 84s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 84s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 84s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 84s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease 86s Reading package lists... 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 86s Calculating upgrade... 87s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 87s Reading package lists... 87s Building dependency tree... 87s Reading state information... 87s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 90s autopkgtest [20:00:23]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 90s autopkgtest [20:00:23]: @@@@@@@@@@@@@@@@@@@@ apt-source python-cobra 93s Get:1 http://ftpmaster.internal/ubuntu noble/universe python-cobra 0.29.0-1 (dsc) [3120 B] 93s Get:2 http://ftpmaster.internal/ubuntu noble/universe python-cobra 0.29.0-1 (tar) [3650 kB] 93s Get:3 http://ftpmaster.internal/ubuntu noble/universe python-cobra 0.29.0-1 (diff) [10.3 kB] 94s gpgv: Signature made Tue Dec 12 16:28:14 2023 UTC 94s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 94s gpgv: issuer "tille@debian.org" 94s gpgv: Can't check signature: No public key 94s dpkg-source: warning: cannot verify inline signature for ./python-cobra_0.29.0-1.dsc: no acceptable signature found 94s autopkgtest [20:00:27]: testing package python-cobra version 0.29.0-1 94s autopkgtest [20:00:27]: build not needed 95s autopkgtest [20:00:28]: test run-unit-test: preparing testbed 98s Reading package lists... 98s Building dependency tree... 98s Reading state information... 99s Starting pkgProblemResolver with broken count: 1 99s Starting 2 pkgProblemResolver with broken count: 1 99s Investigating (0) libpython3.12t64:arm64 < none -> 3.12.2-4build3 @un puN Ib > 99s Broken libpython3.12t64:arm64 Depends on libpython3.12-stdlib:arm64 < 3.12.2-1 @ii pmK > (= 3.12.2-4build3) 99s Considering libpython3.12-stdlib:arm64 12 as a solution to libpython3.12t64:arm64 1 99s Done 99s Some packages could not be installed. This may mean that you have 99s requested an impossible situation or if you are using the unstable 99s distribution that some required packages have not yet been created 99s or been moved out of Incoming. 99s The following information may help to resolve the situation: 99s 99s The following packages have unmet dependencies: 99s libpython3.12t64 : Depends: libpython3.12-stdlib (= 3.12.2-4build3) but 3.12.2-1 is to be installed 99s E: Unable to correct problems, you have held broken packages. 99s autopkgtest: WARNING: Test dependencies are unsatisfiable with using apt pinning. Retrying with using all packages from noble-proposed 100s Reading package lists... 100s Building dependency tree... 100s Reading state information... 100s Starting pkgProblemResolver with broken count: 0 101s Starting 2 pkgProblemResolver with broken count: 0 101s Done 101s The following additional packages will be installed: 101s diffstat gcc-14-base gettext libamd3 libblas3 libcolamd3 libdb5.3t64 101s libgcc-s1 libgfortran5 libglpk40 libgomp1 liblapack3 liblbfgsb0 libltdl7 101s libpython3.11-minimal libpython3.11-stdlib libpython3.12-minimal 101s libpython3.12-stdlib libpython3.12t64 libreadline8t64 libssl3t64 libstdc++6 101s libsuitesparseconfig7 openssl python-cobra-data python3-anyio 101s python3-appdirs python3-click python3-cobra python3-colorama python3-cpuinfo 101s python3-dateutil python3-decorator python3-depinfo python3-diskcache 101s python3-h11 python3-httpcore python3-httpx python3-importlib-resources 101s python3-iniconfig python3-more-itertools python3-mpmath python3-numpy 101s python3-optlang python3-packaging python3-pandas python3-pandas-lib 101s python3-pluggy python3-pydantic python3-pytest python3-pytest-benchmark 101s python3-pytest-mock python3-ruamel.yaml python3-ruamel.yaml.clib 101s python3-sbml5 python3-scipy python3-simplejson python3-sniffio 101s python3-swiglpk python3-sympy python3-tabulate python3-zipp python3.11 101s python3.11-minimal python3.12 python3.12-minimal quilt readline-common swig 101s Suggested packages: 101s autopoint gettext-doc libasprintf-dev libgettextpo-dev libiodbc2-dev 101s default-libmysqlclient-dev python3-matplotlib qsopt-ex python-mpmath-doc 101s python3-gmpy2 gcc gfortran python3-dev python-pandas-doc python3-statsmodels 101s python-pytest-mock-doc python-scipy-doc texlive-fonts-extra dvipng 101s python-sympy-doc python3.11-venv python3.11-doc binfmt-support 101s python3.12-venv python3.12-doc default-mta | mail-transport-agent graphviz 101s procmail readline-doc swig-doc swig-examples 101s Recommended packages: 101s python3-matplotlib python3-bottleneck python3-numexpr python3-odf 101s python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables 101s python3-elasticsearch python3-freezegun python3-pygal g++ | c++-compiler 101s python3-pil isympy-common 101s The following packages will be REMOVED: 101s libdb5.3 libreadline8 libssl3 101s The following NEW packages will be installed: 101s autopkgtest-satdep diffstat gettext libamd3 libblas3 libcolamd3 libdb5.3t64 101s libgfortran5 libglpk40 libgomp1 liblapack3 liblbfgsb0 libltdl7 101s libpython3.11-minimal libpython3.11-stdlib libpython3.12t64 libreadline8t64 101s libssl3t64 libsuitesparseconfig7 python-cobra-data python3-anyio 101s python3-appdirs python3-click python3-cobra python3-colorama python3-cpuinfo 101s python3-dateutil python3-decorator python3-depinfo python3-diskcache 101s python3-h11 python3-httpcore python3-httpx python3-importlib-resources 101s python3-iniconfig python3-more-itertools python3-mpmath python3-numpy 101s python3-optlang python3-packaging python3-pandas python3-pandas-lib 101s python3-pluggy python3-pydantic python3-pytest python3-pytest-benchmark 101s python3-pytest-mock python3-ruamel.yaml python3-ruamel.yaml.clib 101s python3-sbml5 python3-scipy python3-simplejson python3-sniffio 101s python3-swiglpk python3-sympy python3-tabulate python3-zipp python3.11 101s python3.11-minimal quilt swig 101s The following packages will be upgraded: 101s gcc-14-base libgcc-s1 libpython3.12-minimal libpython3.12-stdlib libstdc++6 101s openssl python3.12 python3.12-minimal readline-common 101s 9 upgraded, 61 newly installed, 3 to remove and 235 not upgraded. 101s Need to get 69.1 MB/69.1 MB of archives. 101s After this operation, 302 MB of additional disk space will be used. 101s Get:1 /tmp/autopkgtest.2Op9ay/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [768 B] 102s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu2 [985 kB] 102s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu2 [1793 kB] 102s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 python3.12 arm64 3.12.2-4build3 [645 kB] 102s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 python3.12-minimal arm64 3.12.2-4build3 [2188 kB] 103s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpython3.12-minimal arm64 3.12.2-4build3 [829 kB] 103s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libreadline8t64 arm64 8.2-3.1 [153 kB] 103s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpython3.12-stdlib arm64 3.12.2-4build3 [2001 kB] 103s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-5build1 [719 kB] 103s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 readline-common all 8.2-3.1 [56.4 kB] 103s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpython3.11-minimal arm64 3.11.8-1build4 [838 kB] 103s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 python3.11-minimal arm64 3.11.8-1build4 [2049 kB] 103s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gcc-14-base arm64 14-20240315-1ubuntu1 [47.0 kB] 103s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgcc-s1 arm64 14-20240315-1ubuntu1 [49.9 kB] 103s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libstdc++6 arm64 14-20240315-1ubuntu1 [748 kB] 103s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpython3.11-stdlib arm64 3.11.8-1build4 [1902 kB] 103s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 python3.11 arm64 3.11.8-1build4 [589 kB] 103s Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 diffstat arm64 1.66-1 [28.0 kB] 103s Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgomp1 arm64 14-20240315-1ubuntu1 [144 kB] 103s Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 gettext arm64 0.21-14ubuntu1 [846 kB] 104s Get:21 http://ftpmaster.internal/ubuntu noble/main arm64 libsuitesparseconfig7 arm64 1:7.6.1+dfsg-1 [12.4 kB] 104s Get:22 http://ftpmaster.internal/ubuntu noble/universe arm64 libamd3 arm64 1:7.6.1+dfsg-1 [25.7 kB] 104s Get:23 http://ftpmaster.internal/ubuntu noble/main arm64 libblas3 arm64 3.12.0-3 [143 kB] 104s Get:24 http://ftpmaster.internal/ubuntu noble/main arm64 libcolamd3 arm64 1:7.6.1+dfsg-1 [18.1 kB] 104s Get:25 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgfortran5 arm64 14-20240315-1ubuntu1 [444 kB] 104s Get:26 http://ftpmaster.internal/ubuntu noble/main arm64 libltdl7 arm64 2.4.7-7 [40.3 kB] 104s Get:27 http://ftpmaster.internal/ubuntu noble/universe arm64 libglpk40 arm64 5.0-1build1 [336 kB] 104s Get:28 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack3 arm64 3.12.0-3 [2241 kB] 104s Get:29 http://ftpmaster.internal/ubuntu noble/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1 [27.7 kB] 104s Get:30 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpython3.12t64 arm64 3.12.2-4build3 [2284 kB] 104s Get:31 http://ftpmaster.internal/ubuntu noble/universe arm64 python-cobra-data all 0.29.0-1 [1648 kB] 104s Get:32 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-sniffio all 1.3.0-2 [7216 B] 104s Get:33 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 python3-anyio all 4.2.0-1 [56.5 kB] 104s Get:34 http://ftpmaster.internal/ubuntu noble/main arm64 python3-appdirs all 1.4.4-4 [10.9 kB] 104s Get:35 http://ftpmaster.internal/ubuntu noble/main arm64 python3-colorama all 0.4.6-4 [32.1 kB] 104s Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 python3-click all 8.1.6-2 [79.0 kB] 104s Get:37 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-depinfo arm64 2.2.0-2 [10.9 kB] 104s Get:38 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-diskcache all 5.4.0-3 [34.6 kB] 104s Get:39 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-h11 all 0.14.0-1 [51.1 kB] 104s Get:40 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-httpcore all 1.0.2-2 [38.3 kB] 104s Get:41 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 python3-httpx all 0.26.0-2 [61.3 kB] 104s Get:42 http://ftpmaster.internal/ubuntu noble/main arm64 python3-more-itertools all 10.2.0-1 [52.9 kB] 104s Get:43 http://ftpmaster.internal/ubuntu noble/main arm64 python3-zipp all 1.0.0-6 [6090 B] 104s Get:44 http://ftpmaster.internal/ubuntu noble/main arm64 python3-importlib-resources all 6.0.1-1 [22.1 kB] 104s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 python3-numpy arm64 1:1.24.2-3ubuntu1 [3693 kB] 104s Get:46 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-swiglpk arm64 5.0.10-1 [108 kB] 104s Get:47 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-mpmath all 1.2.1-3 [421 kB] 104s Get:48 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-sympy all 1.12-7 [3966 kB] 104s Get:49 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-optlang all 1.8.1-1 [82.7 kB] 104s Get:50 http://ftpmaster.internal/ubuntu noble/main arm64 python3-dateutil all 2.8.2-3 [79.2 kB] 104s Get:51 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pandas-lib arm64 2.1.4+dfsg-4ubuntu2 [7669 kB] 105s Get:52 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB] 105s Get:53 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pydantic all 1.10.13-0ubuntu1 [150 kB] 105s Get:54 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-ruamel.yaml.clib arm64 0.2.8-1 [187 kB] 105s Get:55 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-ruamel.yaml all 0.17.21-1 [86.6 kB] 105s Get:56 http://ftpmaster.internal/ubuntu noble/main arm64 python3-simplejson arm64 3.19.2-1build1 [61.4 kB] 105s Get:57 http://ftpmaster.internal/ubuntu noble/main arm64 python3-tabulate all 0.8.10-1 [38.2 kB] 105s Get:58 http://ftpmaster.internal/ubuntu noble/universe arm64 swig arm64 4.2.0-2ubuntu1 [1152 kB] 105s Get:59 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 python3-sbml5 arm64 5.20.2+dfsg-2.1build3 [3538 kB] 105s Get:60 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-cobra arm64 0.29.0-1 [1119 kB] 105s Get:61 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-cpuinfo all 9.0.0-1 [21.2 kB] 105s Get:62 http://ftpmaster.internal/ubuntu noble/main arm64 python3-decorator all 5.1.1-5 [10.1 kB] 105s Get:63 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 105s Get:64 http://ftpmaster.internal/ubuntu noble/main arm64 python3-packaging all 23.2-1 [40.6 kB] 105s Get:65 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pluggy all 1.4.0-1 [20.4 kB] 105s Get:66 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 python3-pytest all 8.0.2-1 [248 kB] 105s Get:67 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pytest-benchmark all 4.0.0-3 [38.2 kB] 105s Get:68 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pytest-mock all 3.12.0-1.1 [11.3 kB] 105s Get:69 http://ftpmaster.internal/ubuntu noble/universe arm64 quilt all 0.67+really0.67-4 [436 kB] 105s Get:70 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-scipy arm64 1.11.4-6 [18.6 MB] 107s Fetched 69.1 MB in 4s (16.2 MB/s) 108s (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 ... 74758 files and directories currently installed.) 108s Preparing to unpack .../openssl_3.0.13-0ubuntu2_arm64.deb ... 108s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 108s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: 108s wget depends on libssl3 (>= 3.0.0). 108s u-boot-tools depends on libssl3 (>= 3.0.0). 108s tnftp depends on libssl3 (>= 3.0.0). 108s tcpdump depends on libssl3 (>= 3.0.0). 108s systemd-resolved depends on libssl3 (>= 3.0.0). 108s systemd depends on libssl3 (>= 3.0.0). 108s sudo depends on libssl3 (>= 3.0.0). 108s sbsigntool depends on libssl3 (>= 3.0.0). 108s rsync depends on libssl3 (>= 3.0.0). 108s python3-cryptography depends on libssl3 (>= 3.0.0). 108s openssh-server depends on libssl3 (>= 3.0.10). 108s openssh-client depends on libssl3 (>= 3.0.10). 108s mtd-utils depends on libssl3 (>= 3.0.0). 108s mokutil depends on libssl3 (>= 3.0.0). 108s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 108s libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0). 108s libssh-4:arm64 depends on libssl3 (>= 3.0.0). 108s libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0). 108s libsasl2-2:arm64 depends on libssl3 (>= 3.0.0). 108s libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0). 108s libnvme1 depends on libssl3 (>= 3.0.0). 108s libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). 108s libkmod2:arm64 depends on libssl3 (>= 3.0.0). 108s libfido2-1:arm64 depends on libssl3 (>= 3.0.0). 108s libcurl4:arm64 depends on libssl3 (>= 3.0.0). 108s libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0). 108s kmod depends on libssl3 (>= 3.0.0). 108s dhcpcd-base depends on libssl3 (>= 3.0.0). 108s bind9-libs:arm64 depends on libssl3 (>= 3.0.0). 108s 108s (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 ... 74758 files and directories currently installed.) 108s Removing libssl3:arm64 (3.0.10-1ubuntu4) ... 108s Selecting previously unselected package libssl3t64:arm64. 108s (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 ... 74747 files and directories currently installed.) 108s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_arm64.deb ... 108s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu2) ... 108s Preparing to unpack .../python3.12_3.12.2-4build3_arm64.deb ... 109s Unpacking python3.12 (3.12.2-4build3) over (3.12.2-1) ... 109s Preparing to unpack .../python3.12-minimal_3.12.2-4build3_arm64.deb ... 109s Unpacking python3.12-minimal (3.12.2-4build3) over (3.12.2-1) ... 109s Preparing to unpack .../libpython3.12-minimal_3.12.2-4build3_arm64.deb ... 109s Unpacking libpython3.12-minimal:arm64 (3.12.2-4build3) over (3.12.2-1) ... 109s dpkg: libreadline8:arm64: dependency problems, but removing anyway as you requested: 109s parted depends on libreadline8 (>= 6.0). 109s libpython3.12-stdlib:arm64 depends on libreadline8 (>= 7.0~beta). 109s gpgsm depends on libreadline8 (>= 6.0). 109s gpgconf depends on libreadline8 (>= 6.0). 109s gpg depends on libreadline8 (>= 6.0). 109s gawk depends on libreadline8 (>= 6.0). 109s fdisk depends on libreadline8 (>= 6.0). 109s 109s (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 ... 74760 files and directories currently installed.) 109s Removing libreadline8:arm64 (8.2-3) ... 110s Selecting previously unselected package libreadline8t64:arm64. 110s (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 ... 74748 files and directories currently installed.) 110s Preparing to unpack .../libreadline8t64_8.2-3.1_arm64.deb ... 110s Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' 110s Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' 110s Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' 110s Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' 110s Unpacking libreadline8t64:arm64 (8.2-3.1) ... 110s Preparing to unpack .../libpython3.12-stdlib_3.12.2-4build3_arm64.deb ... 110s Unpacking libpython3.12-stdlib:arm64 (3.12.2-4build3) over (3.12.2-1) ... 110s dpkg: libdb5.3:arm64: dependency problems, but removing anyway as you requested: 110s libsasl2-modules-db:arm64 depends on libdb5.3. 110s libperl5.38:arm64 depends on libdb5.3. 110s libpam-modules:arm64 depends on libdb5.3. 110s iproute2 depends on libdb5.3. 110s apt-utils depends on libdb5.3. 110s 110s (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 ... 74766 files and directories currently installed.) 110s Removing libdb5.3:arm64 (5.3.28+dfsg2-4) ... 111s Selecting previously unselected package libdb5.3t64:arm64. 111s (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 ... 74760 files and directories currently installed.) 111s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-5build1_arm64.deb ... 111s Unpacking libdb5.3t64:arm64 (5.3.28+dfsg2-5build1) ... 111s Setting up libdb5.3t64:arm64 (5.3.28+dfsg2-5build1) ... 111s (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 ... 74766 files and directories currently installed.) 111s Preparing to unpack .../readline-common_8.2-3.1_all.deb ... 111s Unpacking readline-common (8.2-3.1) over (8.2-3) ... 111s Selecting previously unselected package libpython3.11-minimal:arm64. 111s Preparing to unpack .../libpython3.11-minimal_3.11.8-1build4_arm64.deb ... 111s Unpacking libpython3.11-minimal:arm64 (3.11.8-1build4) ... 111s Selecting previously unselected package python3.11-minimal. 111s Preparing to unpack .../python3.11-minimal_3.11.8-1build4_arm64.deb ... 111s Unpacking python3.11-minimal (3.11.8-1build4) ... 111s Preparing to unpack .../gcc-14-base_14-20240315-1ubuntu1_arm64.deb ... 111s Unpacking gcc-14-base:arm64 (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 111s Setting up gcc-14-base:arm64 (14-20240315-1ubuntu1) ... 111s (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 ... 75069 files and directories currently installed.) 111s Preparing to unpack .../libgcc-s1_14-20240315-1ubuntu1_arm64.deb ... 111s Unpacking libgcc-s1:arm64 (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 111s Setting up libgcc-s1:arm64 (14-20240315-1ubuntu1) ... 111s (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 ... 75069 files and directories currently installed.) 111s Preparing to unpack .../libstdc++6_14-20240315-1ubuntu1_arm64.deb ... 112s Unpacking libstdc++6:arm64 (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 112s Setting up libstdc++6:arm64 (14-20240315-1ubuntu1) ... 112s Selecting previously unselected package libpython3.11-stdlib:arm64. 112s (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 ... 75069 files and directories currently installed.) 112s Preparing to unpack .../00-libpython3.11-stdlib_3.11.8-1build4_arm64.deb ... 112s Unpacking libpython3.11-stdlib:arm64 (3.11.8-1build4) ... 112s Selecting previously unselected package python3.11. 112s Preparing to unpack .../01-python3.11_3.11.8-1build4_arm64.deb ... 112s Unpacking python3.11 (3.11.8-1build4) ... 112s Selecting previously unselected package diffstat. 112s Preparing to unpack .../02-diffstat_1.66-1_arm64.deb ... 112s Unpacking diffstat (1.66-1) ... 112s Selecting previously unselected package libgomp1:arm64. 113s Preparing to unpack .../03-libgomp1_14-20240315-1ubuntu1_arm64.deb ... 113s Unpacking libgomp1:arm64 (14-20240315-1ubuntu1) ... 113s Selecting previously unselected package gettext. 113s Preparing to unpack .../04-gettext_0.21-14ubuntu1_arm64.deb ... 113s Unpacking gettext (0.21-14ubuntu1) ... 113s Selecting previously unselected package libsuitesparseconfig7:arm64. 113s Preparing to unpack .../05-libsuitesparseconfig7_1%3a7.6.1+dfsg-1_arm64.deb ... 113s Unpacking libsuitesparseconfig7:arm64 (1:7.6.1+dfsg-1) ... 113s Selecting previously unselected package libamd3:arm64. 113s Preparing to unpack .../06-libamd3_1%3a7.6.1+dfsg-1_arm64.deb ... 113s Unpacking libamd3:arm64 (1:7.6.1+dfsg-1) ... 113s Selecting previously unselected package libblas3:arm64. 113s Preparing to unpack .../07-libblas3_3.12.0-3_arm64.deb ... 113s Unpacking libblas3:arm64 (3.12.0-3) ... 113s Selecting previously unselected package libcolamd3:arm64. 113s Preparing to unpack .../08-libcolamd3_1%3a7.6.1+dfsg-1_arm64.deb ... 113s Unpacking libcolamd3:arm64 (1:7.6.1+dfsg-1) ... 113s Selecting previously unselected package libgfortran5:arm64. 113s Preparing to unpack .../09-libgfortran5_14-20240315-1ubuntu1_arm64.deb ... 113s Unpacking libgfortran5:arm64 (14-20240315-1ubuntu1) ... 113s Selecting previously unselected package libltdl7:arm64. 113s Preparing to unpack .../10-libltdl7_2.4.7-7_arm64.deb ... 113s Unpacking libltdl7:arm64 (2.4.7-7) ... 113s Selecting previously unselected package libglpk40:arm64. 113s Preparing to unpack .../11-libglpk40_5.0-1build1_arm64.deb ... 113s Unpacking libglpk40:arm64 (5.0-1build1) ... 113s Selecting previously unselected package liblapack3:arm64. 113s Preparing to unpack .../12-liblapack3_3.12.0-3_arm64.deb ... 113s Unpacking liblapack3:arm64 (3.12.0-3) ... 113s Selecting previously unselected package liblbfgsb0:arm64. 113s Preparing to unpack .../13-liblbfgsb0_3.0+dfsg.4-1_arm64.deb ... 113s Unpacking liblbfgsb0:arm64 (3.0+dfsg.4-1) ... 113s Selecting previously unselected package libpython3.12t64:arm64. 114s Preparing to unpack .../14-libpython3.12t64_3.12.2-4build3_arm64.deb ... 114s Unpacking libpython3.12t64:arm64 (3.12.2-4build3) ... 114s Selecting previously unselected package python-cobra-data. 114s Preparing to unpack .../15-python-cobra-data_0.29.0-1_all.deb ... 114s Unpacking python-cobra-data (0.29.0-1) ... 114s Selecting previously unselected package python3-sniffio. 114s Preparing to unpack .../16-python3-sniffio_1.3.0-2_all.deb ... 114s Unpacking python3-sniffio (1.3.0-2) ... 114s Selecting previously unselected package python3-anyio. 114s Preparing to unpack .../17-python3-anyio_4.2.0-1_all.deb ... 114s Unpacking python3-anyio (4.2.0-1) ... 114s Selecting previously unselected package python3-appdirs. 114s Preparing to unpack .../18-python3-appdirs_1.4.4-4_all.deb ... 114s Unpacking python3-appdirs (1.4.4-4) ... 114s Selecting previously unselected package python3-colorama. 114s Preparing to unpack .../19-python3-colorama_0.4.6-4_all.deb ... 114s Unpacking python3-colorama (0.4.6-4) ... 114s Selecting previously unselected package python3-click. 114s Preparing to unpack .../20-python3-click_8.1.6-2_all.deb ... 114s Unpacking python3-click (8.1.6-2) ... 114s Selecting previously unselected package python3-depinfo. 114s Preparing to unpack .../21-python3-depinfo_2.2.0-2_arm64.deb ... 114s Unpacking python3-depinfo (2.2.0-2) ... 114s Selecting previously unselected package python3-diskcache. 115s Preparing to unpack .../22-python3-diskcache_5.4.0-3_all.deb ... 115s Unpacking python3-diskcache (5.4.0-3) ... 115s Selecting previously unselected package python3-h11. 115s Preparing to unpack .../23-python3-h11_0.14.0-1_all.deb ... 115s Unpacking python3-h11 (0.14.0-1) ... 115s Selecting previously unselected package python3-httpcore. 115s Preparing to unpack .../24-python3-httpcore_1.0.2-2_all.deb ... 115s Unpacking python3-httpcore (1.0.2-2) ... 115s Selecting previously unselected package python3-httpx. 115s Preparing to unpack .../25-python3-httpx_0.26.0-2_all.deb ... 115s Unpacking python3-httpx (0.26.0-2) ... 115s Selecting previously unselected package python3-more-itertools. 115s Preparing to unpack .../26-python3-more-itertools_10.2.0-1_all.deb ... 115s Unpacking python3-more-itertools (10.2.0-1) ... 115s Selecting previously unselected package python3-zipp. 115s Preparing to unpack .../27-python3-zipp_1.0.0-6_all.deb ... 115s Unpacking python3-zipp (1.0.0-6) ... 115s Selecting previously unselected package python3-importlib-resources. 115s Preparing to unpack .../28-python3-importlib-resources_6.0.1-1_all.deb ... 115s Unpacking python3-importlib-resources (6.0.1-1) ... 115s Selecting previously unselected package python3-numpy. 115s Preparing to unpack .../29-python3-numpy_1%3a1.24.2-3ubuntu1_arm64.deb ... 115s Unpacking python3-numpy (1:1.24.2-3ubuntu1) ... 115s Selecting previously unselected package python3-swiglpk. 115s Preparing to unpack .../30-python3-swiglpk_5.0.10-1_arm64.deb ... 115s Unpacking python3-swiglpk (5.0.10-1) ... 115s Selecting previously unselected package python3-mpmath. 115s Preparing to unpack .../31-python3-mpmath_1.2.1-3_all.deb ... 115s Unpacking python3-mpmath (1.2.1-3) ... 116s Selecting previously unselected package python3-sympy. 116s Preparing to unpack .../32-python3-sympy_1.12-7_all.deb ... 116s Unpacking python3-sympy (1.12-7) ... 116s Selecting previously unselected package python3-optlang. 116s Preparing to unpack .../33-python3-optlang_1.8.1-1_all.deb ... 116s Unpacking python3-optlang (1.8.1-1) ... 116s Selecting previously unselected package python3-dateutil. 116s Preparing to unpack .../34-python3-dateutil_2.8.2-3_all.deb ... 116s Unpacking python3-dateutil (2.8.2-3) ... 116s Selecting previously unselected package python3-pandas-lib:arm64. 116s Preparing to unpack .../35-python3-pandas-lib_2.1.4+dfsg-4ubuntu2_arm64.deb ... 116s Unpacking python3-pandas-lib:arm64 (2.1.4+dfsg-4ubuntu2) ... 117s Selecting previously unselected package python3-pandas. 117s Preparing to unpack .../36-python3-pandas_2.1.4+dfsg-4ubuntu2_all.deb ... 117s Unpacking python3-pandas (2.1.4+dfsg-4ubuntu2) ... 118s Selecting previously unselected package python3-pydantic. 118s Preparing to unpack .../37-python3-pydantic_1.10.13-0ubuntu1_all.deb ... 118s Unpacking python3-pydantic (1.10.13-0ubuntu1) ... 118s Selecting previously unselected package python3-ruamel.yaml.clib:arm64. 118s Preparing to unpack .../38-python3-ruamel.yaml.clib_0.2.8-1_arm64.deb ... 118s Unpacking python3-ruamel.yaml.clib:arm64 (0.2.8-1) ... 118s Selecting previously unselected package python3-ruamel.yaml. 118s Preparing to unpack .../39-python3-ruamel.yaml_0.17.21-1_all.deb ... 118s Unpacking python3-ruamel.yaml (0.17.21-1) ... 118s Selecting previously unselected package python3-simplejson. 118s Preparing to unpack .../40-python3-simplejson_3.19.2-1build1_arm64.deb ... 118s Unpacking python3-simplejson (3.19.2-1build1) ... 118s Selecting previously unselected package python3-tabulate. 119s Preparing to unpack .../41-python3-tabulate_0.8.10-1_all.deb ... 119s Unpacking python3-tabulate (0.8.10-1) ... 119s Selecting previously unselected package swig. 119s Preparing to unpack .../42-swig_4.2.0-2ubuntu1_arm64.deb ... 119s Unpacking swig (4.2.0-2ubuntu1) ... 119s Selecting previously unselected package python3-sbml5. 119s Preparing to unpack .../43-python3-sbml5_5.20.2+dfsg-2.1build3_arm64.deb ... 119s Unpacking python3-sbml5 (5.20.2+dfsg-2.1build3) ... 120s Selecting previously unselected package python3-cobra. 120s Preparing to unpack .../44-python3-cobra_0.29.0-1_arm64.deb ... 120s Unpacking python3-cobra (0.29.0-1) ... 120s Selecting previously unselected package python3-cpuinfo. 120s Preparing to unpack .../45-python3-cpuinfo_9.0.0-1_all.deb ... 120s Unpacking python3-cpuinfo (9.0.0-1) ... 120s Selecting previously unselected package python3-decorator. 120s Preparing to unpack .../46-python3-decorator_5.1.1-5_all.deb ... 120s Unpacking python3-decorator (5.1.1-5) ... 120s Selecting previously unselected package python3-iniconfig. 120s Preparing to unpack .../47-python3-iniconfig_1.1.1-2_all.deb ... 120s Unpacking python3-iniconfig (1.1.1-2) ... 120s Selecting previously unselected package python3-packaging. 120s Preparing to unpack .../48-python3-packaging_23.2-1_all.deb ... 120s Unpacking python3-packaging (23.2-1) ... 120s Selecting previously unselected package python3-pluggy. 120s Preparing to unpack .../49-python3-pluggy_1.4.0-1_all.deb ... 120s Unpacking python3-pluggy (1.4.0-1) ... 120s Selecting previously unselected package python3-pytest. 120s Preparing to unpack .../50-python3-pytest_8.0.2-1_all.deb ... 120s Unpacking python3-pytest (8.0.2-1) ... 120s Selecting previously unselected package python3-pytest-benchmark. 120s Preparing to unpack .../51-python3-pytest-benchmark_4.0.0-3_all.deb ... 120s Unpacking python3-pytest-benchmark (4.0.0-3) ... 120s Selecting previously unselected package python3-pytest-mock. 120s Preparing to unpack .../52-python3-pytest-mock_3.12.0-1.1_all.deb ... 120s Unpacking python3-pytest-mock (3.12.0-1.1) ... 120s Selecting previously unselected package quilt. 120s Preparing to unpack .../53-quilt_0.67+really0.67-4_all.deb ... 120s Unpacking quilt (0.67+really0.67-4) ... 120s Selecting previously unselected package python3-scipy. 120s Preparing to unpack .../54-python3-scipy_1.11.4-6_arm64.deb ... 120s Unpacking python3-scipy (1.11.4-6) ... 121s Selecting previously unselected package autopkgtest-satdep. 121s Preparing to unpack .../55-1-autopkgtest-satdep.deb ... 121s Unpacking autopkgtest-satdep (0) ... 121s Setting up python3-more-itertools (10.2.0-1) ... 121s Setting up python3-iniconfig (1.1.1-2) ... 122s Setting up python3-sniffio (1.3.0-2) ... 122s Setting up swig (4.2.0-2ubuntu1) ... 122s Setting up python3-anyio (4.2.0-1) ... 122s Setting up python3-colorama (0.4.6-4) ... 122s Setting up libssl3t64:arm64 (3.0.13-0ubuntu2) ... 122s Setting up libpython3.12-minimal:arm64 (3.12.2-4build3) ... 122s Setting up python3-ruamel.yaml.clib:arm64 (0.2.8-1) ... 122s Setting up python3-tabulate (0.8.10-1) ... 122s Setting up python3-zipp (1.0.0-6) ... 122s Setting up libgomp1:arm64 (14-20240315-1ubuntu1) ... 122s Setting up python3-click (8.1.6-2) ... 122s Setting up python3-simplejson (3.19.2-1build1) ... 123s Setting up python3-decorator (5.1.1-5) ... 123s Setting up libblas3:arm64 (3.12.0-3) ... 123s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 123s Setting up python3-packaging (23.2-1) ... 123s Setting up python3-pydantic (1.10.13-0ubuntu1) ... 123s Setting up diffstat (1.66-1) ... 123s Setting up python3-h11 (0.14.0-1) ... 124s Setting up python3-depinfo (2.2.0-2) ... 124s Setting up python3-cpuinfo (9.0.0-1) ... 124s Setting up libltdl7:arm64 (2.4.7-7) ... 124s Setting up libgfortran5:arm64 (14-20240315-1ubuntu1) ... 124s Setting up python3-pluggy (1.4.0-1) ... 124s Setting up python3-ruamel.yaml (0.17.21-1) ... 124s Setting up libsuitesparseconfig7:arm64 (1:7.6.1+dfsg-1) ... 124s Setting up python3-dateutil (2.8.2-3) ... 124s Setting up libpython3.11-minimal:arm64 (3.11.8-1build4) ... 124s Setting up python3-mpmath (1.2.1-3) ... 126s Setting up python3-diskcache (5.4.0-3) ... 126s Setting up openssl (3.0.13-0ubuntu2) ... 126s Setting up python-cobra-data (0.29.0-1) ... 126s Setting up python3-appdirs (1.4.4-4) ... 126s Setting up readline-common (8.2-3.1) ... 126s Setting up python3.11-minimal (3.11.8-1build4) ... 126s Setting up python3-httpcore (1.0.2-2) ... 126s Setting up python3-sympy (1.12-7) ... 133s Setting up python3.12-minimal (3.12.2-4build3) ... 133s Setting up liblapack3:arm64 (3.12.0-3) ... 133s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 133s Setting up gettext (0.21-14ubuntu1) ... 133s Setting up libamd3:arm64 (1:7.6.1+dfsg-1) ... 134s Setting up python3-importlib-resources (6.0.1-1) ... 134s Setting up libcolamd3:arm64 (1:7.6.1+dfsg-1) ... 134s Setting up python3-pytest (8.0.2-1) ... 134s Setting up quilt (0.67+really0.67-4) ... 134s Setting up python3-httpx (0.26.0-2) ... 134s Setting up libglpk40:arm64 (5.0-1build1) ... 134s Setting up libreadline8t64:arm64 (8.2-3.1) ... 134s Setting up python3-pytest-mock (3.12.0-1.1) ... 134s Setting up python3-swiglpk (5.0.10-1) ... 135s Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1) ... 135s Setting up python3-optlang (1.8.1-1) ... 135s /usr/lib/python3/dist-packages/optlang/matrix_interface.py:60: SyntaxWarning: invalid escape sequence '\m' 135s """A representation of the convex optimizatgion problem in standard form. 135s /usr/lib/python3/dist-packages/optlang/tests/data/parse_the_final_netlib_results.py:36: SyntaxWarning: invalid escape sequence '\*' 135s OBJ_REGEX = re.compile('\* Objvalue : -?\d+/\d+') 135s /usr/lib/python3/dist-packages/optlang/tests/test_cplex_interface.py:222: SyntaxWarning: invalid escape sequence '\s' 135s self.assertRegexpMatches(str(self.model), '\s*Dummy_\d+:\s*y \+ z \+ 2\.333 x - .* = -300') 135s Setting up python3-pytest-benchmark (4.0.0-3) ... 135s Setting up libpython3.12-stdlib:arm64 (3.12.2-4build3) ... 135s Setting up libpython3.11-stdlib:arm64 (3.11.8-1build4) ... 135s Setting up python3.12 (3.12.2-4build3) ... 136s Setting up libpython3.12t64:arm64 (3.12.2-4build3) ... 136s Setting up python3-numpy (1:1.24.2-3ubuntu1) ... 138s Setting up python3.11 (3.11.8-1build4) ... 139s Setting up python3-scipy (1.11.4-6) ... 143s Setting up python3-pandas-lib:arm64 (2.1.4+dfsg-4ubuntu2) ... 143s Setting up python3-sbml5 (5.20.2+dfsg-2.1build3) ... 143s Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ... 148s Setting up python3-cobra (0.29.0-1) ... 148s Setting up autopkgtest-satdep (0) ... 148s Processing triggers for systemd (255.2-3ubuntu2) ... 149s Processing triggers for man-db (2.12.0-3) ... 149s Processing triggers for install-info (7.1-3) ... 150s Processing triggers for libc-bin (2.39-0ubuntu2) ... 155s (Reading database ... 83703 files and directories currently installed.) 155s Removing autopkgtest-satdep (0) ... 155s autopkgtest [20:01:28]: test run-unit-test: [----------------------- 156s File series fully applied, ends at patch debian/patches/no_future_dependency.patch 156s Running Tests 156s Since python3-sbml5 can only deal with one Python3 version we restrict the test to default Python3 161s ============================= test session starts ============================== 161s platform linux -- Python 3.12.2, pytest-8.0.2, pluggy-1.4.0 161s 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) 161s rootdir: /tmp/autopkgtest.2Op9ay/autopkgtest_tmp 161s plugins: anyio-4.2.0, mock-3.12.0, benchmark-4.0.0 161s collected 551 items 161s 161s tests/test_core/test_configuration.py ...... [ 1%] 167s tests/test_core/test_core_reaction.py ..........ss...................... [ 7%] 168s ...................x....... [ 12%] 168s tests/test_core/test_dictlist.py ...................... [ 16%] 168s tests/test_core/test_formula.py ..... [ 17%] 168s tests/test_core/test_gene.py . [ 17%] 168s tests/test_core/test_gpr.py .....................x..x................... [ 25%] 179s .......................... [ 29%] 179s tests/test_core/test_group.py .. [ 30%] 179s tests/test_core/test_metabolite.py ...ss.ss. [ 31%] 189s tests/test_core/test_model.py .......................................... [ 39%] 190s ...........s..s.ss. [ 43%] 190s tests/test_core/test_solution.py .ss [ 43%] 197s tests/test_flux_analysis/test_deletion.py ....s..... [ 45%] 199s tests/test_flux_analysis/test_fastcc.py .... [ 46%] 203s tests/test_flux_analysis/test_geometric.py .. [ 46%] 203s tests/test_flux_analysis/test_moma.py . [ 46%] 208s tests/test_flux_analysis/test_parsimonious.py .. [ 47%] 208s tests/test_flux_analysis/test_reaction.py . [ 47%] 212s tests/test_flux_analysis/test_room.py .... [ 47%] 217s tests/test_flux_analysis/test_variability.py ....... [ 49%] 217s tests/test_flux_analysis/test_deletion.py sss [ 49%] 217s tests/test_flux_analysis/test_moma.py s [ 49%] 222s tests/test_flux_analysis/test_deletion.py ...... [ 50%] 225s tests/test_flux_analysis/test_gapfilling.py . [ 51%] 225s tests/test_flux_analysis/test_helpers.py ... [ 51%] 225s tests/test_flux_analysis/test_loopless.py ..... [ 52%] 228s tests/test_flux_analysis/test_phenotype_phase_plane.py ...... [ 53%] 229s tests/test_flux_analysis/test_variability.py ....... [ 54%] 229s tests/test_io/test_annotation.py .. [ 55%] 229s tests/test_io/test_annotation_format.py .. [ 55%] 233s tests/test_io/test_io_order.py ........................... [ 60%] 233s tests/test_io/test_json.py .... [ 61%] 251s tests/test_io/test_mat.py ............... [ 64%] 251s tests/test_io/test_notes.py . [ 64%] 251s tests/test_io/test_pickle.py .. [ 64%] 258s tests/test_io/test_sbml.py .ssss............xxxx.x.x..s............. [ 72%] 259s tests/test_io/test_web/test_load.py ..ssss. [ 73%] 259s tests/test_io/test_yaml.py .x [ 73%] 259s tests/test_manipulation/test_annotate.py . [ 73%] 260s tests/test_manipulation/test_delete.py ....... [ 75%] 260s tests/test_manipulation/test_modify.py ... [ 75%] 260s tests/test_manipulation/test_validate.py .. [ 76%] 261s tests/test_medium/test_boundary_types.py ......... [ 77%] 262s tests/test_medium/test_minimal_medium.py .......... [ 79%] 264s tests/test_sampling/test_achr.py ...... [ 80%] 267s tests/test_sampling/test_optgp.py ...... [ 81%] 273s tests/test_sampling/test_sampling.py .......... [ 83%] 275s tests/test_summary/test_metabolite_summary.py ................. [ 86%] 277s tests/test_summary/test_model_summary.py ............... [ 89%] 279s tests/test_summary/test_reaction_summary.py .................... [ 92%] 279s tests/test_util/test_array.py .. [ 93%] 279s tests/test_util/test_context.py ... [ 93%] 283s tests/test_util/test_process_pool.py ............... [ 96%] 288s tests/test_util/test_solver.py ..............s [ 99%] 288s tests/test_util/test_util.py ...X [100%] 288s 288s =============================== warnings summary =============================== 288s ../../../usr/lib/python3/dist-packages/dateutil/tz/tz.py:37 288s /usr/lib/python3/dist-packages/dateutil/tz/tz.py:37: DeprecationWarning: datetime.datetime.utcfromtimestamp() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.fromtimestamp(timestamp, datetime.UTC). 288s EPOCH = datetime.datetime.utcfromtimestamp(0) 288s 288s tests/test_core/test_gpr.py::test_and_gpr[a AND b-2-gpr_genes2-a and b] 288s tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_and_b_strs] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists1] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists2] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists3] 288s /usr/lib/python3/dist-packages/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a AND b'. 288s warn( 288s 288s tests/test_core/test_gpr.py::test_or_gpr[a OR b-2-gpr_genes2-a or b] 288s tests/test_core/test_gpr.py::test_gpr_as_symbolic_boolean[a OR b-symbolic_gpr2] 288s tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_or_b_strs] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists4] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists5] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists6] 288s tests/test_core/test_gpr.py::test_gpr_from_symbolic[a OR b-symbolic_gpr5] 288s /usr/lib/python3/dist-packages/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a OR b'. 288s warn( 288s 288s tests/test_core/test_gpr.py::test_complicated_gpr[(a OR b) AND c] 288s tests/test_core/test_gpr.py::test_gpr_as_symbolic_boolean[(a OR b) AND c-symbolic_gpr6] 288s tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_b_c_or_and_strs] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists3] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists6] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists8] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists9] 288s tests/test_core/test_gpr.py::test_gpr_from_symbolic[(a OR b) AND c-symbolic_gpr9] 288s /usr/lib/python3/dist-packages/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule '(a OR b) AND c'. 288s warn( 288s 288s tests/test_core/test_gpr.py::test_gpr_that_needs_two_replacements 288s /usr/lib/python3/dist-packages/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)'. 288s warn( 288s 288s tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_and_b_strs] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists1] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists2] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists3] 288s /usr/lib/python3/dist-packages/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'b AND a'. 288s warn( 288s 288s tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_or_b_strs] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists0] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists4] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists5] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists6] 288s /usr/lib/python3/dist-packages/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'b OR a'. 288s warn( 288s 288s tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_b_c_or_strs] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists1] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists4] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists7] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists8] 288s /usr/lib/python3/dist-packages/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a OR b or c'. 288s warn( 288s 288s tests/test_core/test_gpr.py::test_gpr_equality_with_bolean_logic[a_b_c_and_strs] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists2] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists5] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists7] 288s tests/test_core/test_gpr.py::test_gpr_inequality_boolean[gpr_lists9] 288s /usr/lib/python3/dist-packages/cobra/core/gene.py:358: SyntaxWarning: Uppercase AND/OR found in rule 'a AND b and c'. 288s warn( 288s 288s tests/test_core/test_model.py::test_reaction_delete 288s tests/test_core/test_model.py::test_reaction_delete 288s /usr/lib/python3/dist-packages/cobra/core/reaction.py:879: DeprecationWarning: delete is deprecated. Use reaction.remove_from_model instead 288s warn( 288s 288s tests/test_core/test_model.py::test_group_loss_of_elements 288s tests/test_flux_analysis/test_gapfilling.py::test_gapfilling 288s /usr/lib/python3/dist-packages/cobra/core/group.py:147: UserWarning: need to pass in a list 288s warn("need to pass in a list") 288s 288s tests/test_core/test_model.py::test_change_objective 288s tests/test_core/test_model.py::test_change_objective 288s tests/test_core/test_model.py::test_change_objective 288s /usr/lib/python3/dist-packages/cobra/core/reaction.py:761: DeprecationWarning: Please use reaction.flux instead. 288s warn("Please use reaction.flux instead.", DeprecationWarning) 288s 288s tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion 288s tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion 288s /tmp/autopkgtest.2Op9ay/autopkgtest_tmp/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 288s assert math.isnan(sol.growth) 288s 288s tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion 288s tests/test_flux_analysis/test_deletion.py::test_double_reaction_deletion 288s /tmp/autopkgtest.2Op9ay/autopkgtest_tmp/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 288s assert math.isnan(sol_one.growth) 288s 288s tests/test_io/test_json.py: 1 warning 288s tests/test_io/test_mat.py: 5 warnings 288s tests/test_io/test_pickle.py: 1 warning 288s tests/test_io/test_sbml.py: 9 warnings 288s tests/test_io/test_yaml.py: 1 warning 288s /usr/lib/python3/dist-packages/cobra/util/solver.py:554: UserWarning: Solver status is 'infeasible'. 288s warn(f"Solver status is '{status}'.", UserWarning) 288s 288s tests/test_medium/test_boundary_types.py: 96 warnings 288s /usr/lib/python3/dist-packages/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]` 288s return most[0] 288s 288s tests/test_medium/test_boundary_types.py::test_find_external_compartment_multi 288s tests/test_medium/test_boundary_types.py::test_find_external_compartment_multi 288s tests/test_medium/test_boundary_types.py::test_find_external_compartment_multi 288s /usr/lib/python3/dist-packages/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]` 288s compartment = most[matches[most]][0] 288s 288s tests/test_util/test_process_pool.py::test_with_context 288s /usr/lib/python3/dist-packages/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 288s self._pool.__enter__() 288s 288s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 288s 288s -------------------------------------------------------------------------------------------------------------------- benchmark: 31 tests --------------------------------------------------------------------------------------------------------------------- 288s Name (time in us) Min Max Mean StdDev Median IQR Outliers OPS Rounds Iterations 288s -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 288s test_subtract_metabolite_benchmark[glpk] 4.5200 (1.0) 1,663.7290 (37.04) 5.3915 (1.09) 25.3562 (19.39) 4.8800 (1.03) 0.2800 (1.0) 4;189 185,476.3178 (0.92) 4289 1 288s test_subtract_metabolite_benchmark[gurobi] 4.5200 (1.0) 49.7200 (1.11) 5.1201 (1.03) 2.7394 (2.09) 4.7200 (1.0) 0.3200 (1.14) 65;166 195,309.2851 (0.97) 3441 1 288s test_subtract_metabolite_benchmark[cplex] 4.5200 (1.00) 44.9200 (1.0) 4.9638 (1.0) 1.3076 (1.0) 4.8800 (1.03) 0.4000 (1.43) 39;134 201,459.0020 (1.0) 4187 1 288s test_achr_sample_benchmark 195.5200 (43.26) 396.0000 (8.82) 217.6510 (43.85) 22.6023 (17.29) 209.3200 (44.35) 24.5200 (87.57) 111;39 4,594.5109 (0.02) 814 1 288s test_change_objective_benchmark[optlang-glpk] 210.6410 (46.60) 7,561.3430 (168.33) 231.3056 (46.60) 121.4493 (92.88) 221.7600 (46.98) 11.9500 (42.68) 24;530 4,323.2850 (0.02) 3835 1 288s test_optgp_sample_benchmark 300.6800 (66.52) 639.5210 (14.24) 329.8818 (66.46) 31.3438 (23.97) 317.1805 (67.20) 26.2800 (93.86) 241;116 3,031.3893 (0.02) 1586 1 288s test_loopless_benchmark_after 1,053.3620 (233.04) 1,369.0020 (30.48) 1,126.6724 (226.98) 53.4417 (40.87) 1,117.6020 (236.78) 64.0800 (228.86) 65;12 887.5694 (0.00) 290 1 288s test_single_gene_deletion_fba_benchmark[glpk] 4,606.9330 (>1000.0) 13,065.6780 (290.87) 4,879.4190 (983.00) 633.5476 (484.51) 4,815.9940 (>1000.0) 140.3610 (501.29) 1;3 204.9424 (0.00) 174 1 288s test_minimal_medium_mip_benchmark 6,595.0470 (>1000.0) 7,469.7270 (166.29) 6,889.0526 (>1000.0) 171.2880 (130.99) 6,862.7670 (>1000.0) 259.3203 (926.14) 24;2 145.1578 (0.00) 83 1 288s test_loopless_benchmark_before 6,627.6090 (>1000.0) 19,336.1090 (430.46) 8,934.6762 (>1000.0) 3,110.4534 (>1000.0) 7,453.6110 (>1000.0) 3,142.5742 (>1000.0) 2;1 111.9235 (0.00) 19 1 288s test_minimal_medium_linear_benchmark 6,749.2060 (>1000.0) 11,549.4120 (257.11) 7,107.8609 (>1000.0) 535.6650 (409.65) 7,009.2470 (>1000.0) 201.3408 (719.07) 2;4 140.6893 (0.00) 81 1 288s test_copy_benchmark[optlang-glpk] 19,102.7500 (>1000.0) 298,539.6670 (>1000.0) 26,620.6586 (>1000.0) 40,994.6431 (>1000.0) 20,417.5340 (>1000.0) 1,697.8080 (>1000.0) 1;1 37.5648 (0.00) 46 1 288s test_flux_variability_loopless_benchmark[glpk] 24,022.9610 (>1000.0) 32,381.4550 (720.87) 25,632.0549 (>1000.0) 2,051.1492 (>1000.0) 25,093.0025 (>1000.0) 479.5210 (>1000.0) 1;4 39.0136 (0.00) 14 1 288s test_single_reaction_deletion_benchmark[glpk] 25,963.1440 (>1000.0) 27,083.2670 (602.92) 26,470.8851 (>1000.0) 318.3941 (243.49) 26,415.9860 (>1000.0) 434.0003 (>1000.0) 11;0 37.7774 (0.00) 29 1 288s test_gpr_equality_benchmark 27,275.6710 (>1000.0) 30,649.1610 (682.31) 28,634.4353 (>1000.0) 688.9006 (526.84) 28,586.8360 (>1000.0) 960.4833 (>1000.0) 7;1 34.9230 (0.00) 31 1 288s test_deepcopy_benchmark 28,541.4080 (>1000.0) 591,992.6470 (>1000.0) 49,409.2116 (>1000.0) 99,053.2122 (>1000.0) 31,258.6565 (>1000.0) 1,838.4455 (>1000.0) 1;3 20.2391 (0.00) 32 1 288s test_fastcc_benchmark[glpk] 68,896.9660 (>1000.0) 75,574.6210 (>1000.0) 71,739.7486 (>1000.0) 2,002.5915 (>1000.0) 71,452.4920 (>1000.0) 3,499.8893 (>1000.0) 4;0 13.9393 (0.00) 13 1 288s test_add_metabolite_benchmark[gurobi] 81,025.6790 (>1000.0) 84,707.6070 (>1000.0) 82,769.0477 (>1000.0) 1,092.0940 (835.18) 82,763.2435 (>1000.0) 1,413.1450 (>1000.0) 5;0 12.0818 (0.00) 12 1 288s test_add_metabolite_benchmark[glpk] 81,085.6650 (>1000.0) 82,889.7950 (>1000.0) 82,039.0568 (>1000.0) 524.3972 (401.04) 81,994.7900 (>1000.0) 544.2907 (>1000.0) 4;0 12.1893 (0.00) 13 1 288s test_add_metabolite_benchmark[cplex] 81,559.4550 (>1000.0) 84,325.8970 (>1000.0) 82,456.8976 (>1000.0) 768.5846 (587.78) 82,296.2550 (>1000.0) 922.2047 (>1000.0) 3;1 12.1275 (0.00) 13 1 288s test_double_reaction_deletion_benchmark 88,847.4990 (>1000.0) 89,859.1000 (>1000.0) 89,498.4278 (>1000.0) 398.2408 (304.56) 89,602.0600 (>1000.0) 495.7802 (>1000.0) 1;0 11.1734 (0.00) 5 1 288s test_achr_init_benchmark 98,543.7770 (>1000.0) 102,583.4210 (>1000.0) 100,845.8940 (>1000.0) 1,418.9414 (>1000.0) 100,861.6590 (>1000.0) 2,385.6420 (>1000.0) 2;0 9.9161 (0.00) 8 1 288s test_optgp_init_benchmark 99,695.0960 (>1000.0) 104,965.2220 (>1000.0) 102,002.0309 (>1000.0) 1,759.0821 (>1000.0) 101,839.1590 (>1000.0) 2,961.5630 (>1000.0) 2;0 9.8037 (0.00) 10 1 288s test_gpr_symbolism_benchmark 213,514.1280 (>1000.0) 216,122.7400 (>1000.0) 215,016.1848 (>1000.0) 1,113.3389 (851.43) 215,245.7360 (>1000.0) 1,912.0600 (>1000.0) 1;0 4.6508 (0.00) 5 1 288s test_single_gene_deletion_linear_moma_benchmark[glpk] 216,617.8350 (>1000.0) 468,895.3990 (>1000.0) 301,803.9338 (>1000.0) 114,441.8736 (>1000.0) 227,519.2910 (>1000.0) 177,622.1365 (>1000.0) 1;0 3.3134 (0.00) 5 1 288s test_double_gene_deletion_benchmark 221,933.1240 (>1000.0) 224,796.0520 (>1000.0) 223,545.5670 (>1000.0) 1,039.6116 (795.05) 223,739.4060 (>1000.0) 1,063.9428 (>1000.0) 2;0 4.4734 (0.00) 5 1 288s test_pfba_benchmark[glpk] 286,631.1850 (>1000.0) 747,007.6770 (>1000.0) 382,010.5744 (>1000.0) 204,055.1218 (>1000.0) 292,583.2250 (>1000.0) 116,710.9332 (>1000.0) 1;1 2.6177 (0.00) 5 1 288s test_single_gene_deletion_linear_room_benchmark[glpk] 333,994.3170 (>1000.0) 340,908.5550 (>1000.0) 337,284.1892 (>1000.0) 3,016.8667 (>1000.0) 337,705.5350 (>1000.0) 5,400.2633 (>1000.0) 2;0 2.9649 (0.00) 5 1 288s test_copy_benchmark_large_model[optlang-glpk] 382,950.0720 (>1000.0) 977,058.1010 (>1000.0) 578,488.3920 (>1000.0) 275,991.3606 (>1000.0) 388,263.6890 (>1000.0) 431,793.6448 (>1000.0) 1;0 1.7286 (0.00) 5 1 288s test_geometric_fba_benchmark[glpk] 452,899.2660 (>1000.0) 992,071.8030 (>1000.0) 565,515.9952 (>1000.0) 238,498.2922 (>1000.0) 459,671.5000 (>1000.0) 141,384.7500 (>1000.0) 1;1 1.7683 (0.00) 5 1 288s test_flux_variability_benchmark[glpk] 469,747.3990 (>1000.0) 473,682.3070 (>1000.0) 472,374.0450 (>1000.0) 1,517.5050 (>1000.0) 472,810.7310 (>1000.0) 1,137.7110 (>1000.0) 1;1 2.1170 (0.00) 5 1 288s -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 288s 288s Legend: 288s Outliers: 1 Standard Deviation from Mean; 1.5 IQR (InterQuartile Range) from 1st Quartile and 3rd Quartile. 288s OPS: Operations Per Second, computed as 1 / Mean 288s = 513 passed, 27 skipped, 10 xfailed, 1 xpassed, 172 warnings in 129.17s (0:02:09) = 292s Removing patch debian/patches/no_future_dependency.patch 292s Restoring setup.cfg 292s 292s Removing patch debian/patches/32-bit-test.patch 292s Restoring tests/test_io/test_mat.py 293s 293s Removing patch debian/patches/do-not-seek-for-name.patch 293s Restoring src/cobra/io/sbml.py 293s 293s Removing patch debian/patches/ignore_tests.patch 293s Restoring tests/test_io/test_web/test_load.py 293s 293s Removing patch debian/patches/xfail_test_show_versions.patch 293s Restoring tests/test_util/test_util.py 293s 293s Removing patch debian/patches/mathjax.patch 293s Restoring documentation_builder/conf.py 294s 294s No patches applied 294s PASS 294s autopkgtest [20:03:47]: test run-unit-test: -----------------------] 295s run-unit-test PASS 295s autopkgtest [20:03:48]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 295s autopkgtest [20:03:48]: @@@@@@@@@@@@@@@@@@@@ summary 295s run-unit-test PASS 314s Creating nova instance adt-noble-arm64-python-cobra-20240320-195853-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-arm64-server-20240320.img (UUID e0f61a12-2f1c-4e49-a68b-f68d2ad5dd10)...