Diff of the two buildlogs: -- --- b1/build.log 2024-11-18 17:30:09.088731859 +0000 +++ b2/build.log 2024-11-18 17:34:10.865793856 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Nov 18 05:26:23 -12 2024 -I: pbuilder-time-stamp: 1731950783 +I: Current time: Mon Dec 22 13:53:11 +14 2025 +I: pbuilder-time-stamp: 1766361191 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -33,52 +33,84 @@ dpkg-source: info: applying remove-appdirs.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3033800/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3356183/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Dec 21 23:53 /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/3356183/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3356183/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='7e290ef55e284821ade810d0d6332ca2' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='3033800' - PS1='# ' - PS2='> ' + INVOCATION_ID=f6a0c3eb26e04e12aaa1701352a09be6 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3356183 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.P8b8sirk/pbuilderrc_EwHq --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.P8b8sirk/b1 --logfile b1/build.log python-cobra_0.29.1-1.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.P8b8sirk/pbuilderrc_QtEJ --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.P8b8sirk/b2 --logfile b2/build.log python-cobra_0.29.1-1.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink02-arm64 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3033800/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3356183/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -395,7 +427,7 @@ Get: 223 http://deb.debian.org/debian unstable/main arm64 python3-ruamel.yaml all 0.18.6+ds-3 [145 kB] Get: 224 http://deb.debian.org/debian unstable/main arm64 python3-sbml5 arm64 5.20.2+dfsg-8+b1 [3110 kB] Get: 225 http://deb.debian.org/debian unstable/main arm64 python3-tabulate all 0.9.0-1 [45.9 kB] -Fetched 141 MB in 3s (54.7 MB/s) +Fetched 141 MB in 1s (225 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20084 files and directories currently installed.) @@ -1120,8 +1152,8 @@ Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' -Local time is now: Mon Nov 18 17:27:07 UTC 2024. -Universal Time is now: Mon Nov 18 17:27:07 UTC 2024. +Local time is now: Sun Dec 21 23:53:41 UTC 2025. +Universal Time is now: Sun Dec 21 23:53:41 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -1344,7 +1376,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/python-cobra-0.29.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../python-cobra_0.29.1-1_source.changes +I: user script /srv/workspace/pbuilder/3356183/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3356183/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/python-cobra-0.29.1/ && 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_0.29.1-1_source.changes dpkg-buildpackage: info: source package python-cobra dpkg-buildpackage: info: source version 0.29.1-1 dpkg-buildpackage: info: source distribution unstable @@ -1651,46 +1687,46 @@ -- 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[glpk] 3.2000 (1.0) 113.1200 (4.50) 3.3667 (1.01) 1.7227 (4.30) 3.3200 (1.01) 0.0800 (2.00) 10;95 297,025.5785 (0.99) 4445 1 -test_subtract_metabolite_benchmark[gurobi] 3.2000 (1.0) 25.1210 (1.0) 3.3207 (1.0) 0.4419 (1.10) 3.2800 (1.0) 0.0400 (1.0) 18;341 301,145.1777 (1.0) 4510 1 -test_subtract_metabolite_benchmark[cplex] 3.2000 (1.00) 27.2000 (1.08) 3.3494 (1.01) 0.4007 (1.0) 3.3200 (1.01) 0.0800 (2.00) 11;76 298,558.6831 (0.99) 4415 1 -test_achr_sample_benchmark 183.0010 (57.19) 280.6410 (11.17) 193.9866 (58.42) 12.2617 (30.60) 189.0810 (57.65) 6.7600 (169.05) 138;161 5,154.9954 (0.02) 992 1 -test_change_objective_benchmark[optlang-glpk] 228.5610 (71.43) 932.8050 (37.13) 248.7058 (74.90) 36.6168 (91.38) 239.4410 (73.00) 12.7808 (319.61) 97;326 4,020.8147 (0.01) 2689 1 -test_optgp_sample_benchmark 274.4420 (85.76) 3,871.3000 (154.11) 299.7749 (90.28) 130.0791 (324.61) 285.7620 (87.12) 18.4703 (461.89) 8;95 3,335.8364 (0.01) 1467 1 -test_loopless_benchmark_after 1,139.3260 (356.04) 1,457.2880 (58.01) 1,186.9434 (357.44) 32.0157 (79.89) 1,182.1260 (360.40) 32.2200 (805.73) 65;15 842.5002 (0.00) 325 1 -test_loopless_benchmark_before 5,349.2280 (>1000.0) 5,650.9500 (224.95) 5,494.6788 (>1000.0) 67.8326 (169.28) 5,491.6290 (>1000.0) 91.7610 (>1000.0) 35;0 181.9943 (0.00) 110 1 -test_minimal_medium_mip_benchmark 7,400.6790 (>1000.0) 8,433.7240 (335.72) 7,736.4745 (>1000.0) 204.1943 (509.56) 7,697.0010 (>1000.0) 220.3617 (>1000.0) 17;4 129.2578 (0.00) 75 1 -test_minimal_medium_linear_benchmark 7,598.3200 (>1000.0) 8,370.8840 (333.22) 7,833.0474 (>1000.0) 153.8150 (383.84) 7,810.6610 (>1000.0) 205.8020 (>1000.0) 18;2 127.6642 (0.00) 66 1 -test_copy_benchmark[optlang-glpk] 13,101.9090 (>1000.0) 313,850.4960 (>1000.0) 18,179.9812 (>1000.0) 34,616.0163 (>1000.0) 13,646.1120 (>1000.0) 1,685.4290 (>1000.0) 1;1 55.0056 (0.00) 75 1 -test_gpr_equality_benchmark 19,973.3051 (>1000.0) 20,831.6300 (829.25) 20,191.5218 (>1000.0) 152.7776 (381.25) 20,155.8665 (>1000.0) 152.5600 (>1000.0) 11;1 49.5257 (0.00) 42 1 -test_deepcopy_benchmark 22,561.2790 (>1000.0) 597,372.7520 (>1000.0) 38,884.9357 (>1000.0) 88,288.9442 (>1000.0) 25,688.9960 (>1000.0) 2,631.6940 (>1000.0) 1;1 25.7169 (0.00) 42 1 -test_single_reaction_deletion_benchmark[glpk] 24,310.7280 (>1000.0) 27,078.2220 (>1000.0) 25,478.2524 (>1000.0) 957.3646 (>1000.0) 25,728.2755 (>1000.0) 1,706.0885 (>1000.0) 21;0 39.2492 (0.00) 40 1 -test_add_metabolite_benchmark[gurobi] 56,263.7360 (>1000.0) 56,504.8979 (>1000.0) 56,361.5729 (>1000.0) 60.7372 (151.57) 56,356.8569 (>1000.0) 83.7600 (>1000.0) 5;0 17.7426 (0.00) 19 1 -test_add_metabolite_benchmark[glpk] 56,350.2170 (>1000.0) 56,798.4190 (>1000.0) 56,511.4581 (>1000.0) 112.7475 (281.36) 56,491.2580 (>1000.0) 157.0610 (>1000.0) 5;0 17.6955 (0.00) 19 1 -test_add_metabolite_benchmark[cplex] 56,526.8180 (>1000.0) 56,972.1010 (>1000.0) 56,683.9243 (>1000.0) 110.3208 (275.30) 56,662.4990 (>1000.0) 128.3007 (>1000.0) 7;1 17.6417 (0.00) 19 1 -test_fastcc_benchmark[glpk] 56,669.0990 (>1000.0) 325,588.0380 (>1000.0) 79,337.0081 (>1000.0) 68,371.0874 (>1000.0) 62,301.6890 (>1000.0) 6,315.9240 (>1000.0) 1;2 12.6045 (0.00) 15 1 -test_optgp_init_benchmark 82,840.3570 (>1000.0) 87,306.2610 (>1000.0) 84,530.2898 (>1000.0) 1,534.9787 (>1000.0) 83,701.6820 (>1000.0) 2,716.9950 (>1000.0) 4;0 11.8301 (0.00) 12 1 -test_achr_init_benchmark 83,444.8010 (>1000.0) 87,639.9430 (>1000.0) 84,978.0188 (>1000.0) 1,530.0585 (>1000.0) 84,552.6865 (>1000.0) 2,463.5130 (>1000.0) 3;0 11.7677 (0.00) 12 1 -test_gpr_symbolism_benchmark 126,561.9080 (>1000.0) 132,314.5780 (>1000.0) 128,777.7494 (>1000.0) 2,197.5474 (>1000.0) 128,087.6555 (>1000.0) 3,230.1970 (>1000.0) 3;0 7.7653 (0.00) 8 1 -test_single_gene_deletion_linear_moma_benchmark[glpk] 172,921.1120 (>1000.0) 1,016,295.1220 (>1000.0) 315,882.5133 (>1000.0) 343,134.4008 (>1000.0) 176,338.8300 (>1000.0) 1,917.0100 (>1000.0) 1;1 3.1657 (0.00) 6 1 -test_flux_variability_loopless_benchmark[glpk] 194,756.0680 (>1000.0) 219,449.3980 (>1000.0) 204,027.9102 (>1000.0) 9,185.1787 (>1000.0) 200,983.1210 (>1000.0) 12,209.7450 (>1000.0) 2;0 4.9013 (0.00) 6 1 -test_double_gene_deletion_benchmark 230,383.0560 (>1000.0) 238,916.8610 (>1000.0) 234,144.3880 (>1000.0) 3,823.8776 (>1000.0) 233,191.9510 (>1000.0) 6,953.9368 (>1000.0) 1;0 4.2709 (0.00) 5 1 -test_single_gene_deletion_linear_room_benchmark[glpk] 254,696.4640 (>1000.0) 266,683.2470 (>1000.0) 260,463.3984 (>1000.0) 4,687.5993 (>1000.0) 261,764.7010 (>1000.0) 6,779.2952 (>1000.0) 2;0 3.8393 (0.00) 5 1 -test_pfba_benchmark[glpk] 272,345.8770 (>1000.0) 554,419.6860 (>1000.0) 329,881.9490 (>1000.0) 125,526.4171 (>1000.0) 274,592.0090 (>1000.0) 72,415.3620 (>1000.0) 1;1 3.0314 (0.00) 5 1 -test_copy_benchmark_large_model[optlang-glpk] 304,428.6860 (>1000.0) 729,800.9310 (>1000.0) 459,425.3198 (>1000.0) 212,196.9495 (>1000.0) 307,350.5010 (>1000.0) 364,376.2225 (>1000.0) 1;0 2.1766 (0.00) 5 1 -test_single_gene_deletion_fba_benchmark[glpk] 314,146.0980 (>1000.0) 438,817.7150 (>1000.0) 340,848.2384 (>1000.0) 54,801.6373 (>1000.0) 317,953.6380 (>1000.0) 34,117.1600 (>1000.0) 1;1 2.9339 (0.00) 5 1 -test_geometric_fba_benchmark[glpk] 389,243.9740 (>1000.0) 434,815.7340 (>1000.0) 403,621.1058 (>1000.0) 17,857.9829 (>1000.0) 398,085.0610 (>1000.0) 12,709.2260 (>1000.0) 1;1 2.4776 (0.00) 5 1 -test_flux_variability_benchmark[glpk] 434,301.8130 (>1000.0) 436,068.9820 (>1000.0) 435,211.8570 (>1000.0) 746.4197 (>1000.0) 435,507.2980 (>1000.0) 1,227.7067 (>1000.0) 2;0 2.2977 (0.00) 5 1 -test_double_reaction_deletion_benchmark 668,242.4480 (>1000.0) 720,869.6050 (>1000.0) 687,730.6464 (>1000.0) 19,982.1104 (>1000.0) 682,261.2420 (>1000.0) 21,078.2105 (>1000.0) 1;0 1.4541 (0.00) 5 1 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- +-------------------------------------------------------------------------------------------------------------------- benchmark: 31 tests --------------------------------------------------------------------------------------------------------------------- +Name (time in us) Min Max Mean StdDev Median IQR Outliers OPS Rounds Iterations +-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- +test_subtract_metabolite_benchmark[cplex] 3.2000 (1.0) 23.9600 (1.0) 3.3321 (1.00) 0.5447 (1.03) 3.3200 (1.01) 0.0400 (1.00) 18;274 300,107.5701 (1.00) 4442 1 +test_subtract_metabolite_benchmark[gurobi] 3.2000 (1.0) 27.2000 (1.14) 3.3281 (1.0) 0.5657 (1.07) 3.2800 (1.0) 0.0400 (1.0) 18;335 300,469.8041 (1.0) 4413 1 +test_subtract_metabolite_benchmark[glpk] 3.2400 (1.01) 26.2000 (1.09) 3.3395 (1.00) 0.5305 (1.0) 3.3200 (1.01) 0.0400 (1.00) 12;344 299,450.3573 (1.00) 4483 1 +test_achr_sample_benchmark 181.1601 (56.61) 317.2000 (13.24) 192.2196 (57.76) 11.5116 (21.70) 187.7600 (57.24) 5.6200 (140.54) 117;137 5,202.3819 (0.02) 900 1 +test_change_objective_benchmark[optlang-glpk] 209.3600 (65.43) 885.5200 (36.96) 253.3754 (76.13) 80.2139 (151.21) 227.6400 (69.40) 18.3900 (459.88) 213;317 3,946.7133 (0.01) 2787 1 +test_optgp_sample_benchmark 272.8400 (85.26) 398.2800 (16.62) 285.5722 (85.81) 13.0630 (24.62) 279.8000 (85.30) 11.2000 (280.08) 214;153 3,501.7418 (0.01) 1358 1 +test_loopless_benchmark_after 1,089.1200 (340.35) 1,848.8800 (77.17) 1,137.8590 (341.89) 49.5627 (93.43) 1,131.2200 (344.88) 33.9200 (848.24) 20;17 878.8435 (0.00) 334 1 +test_loopless_benchmark_before 5,297.8000 (>1000.0) 6,092.6800 (254.29) 5,495.4976 (>1000.0) 104.6207 (197.22) 5,489.7200 (>1000.0) 112.6300 (>1000.0) 23;2 181.9671 (0.00) 107 1 +test_minimal_medium_mip_benchmark 7,069.8000 (>1000.0) 7,770.3600 (324.31) 7,344.1938 (>1000.0) 150.7610 (284.19) 7,337.3400 (>1000.0) 169.5600 (>1000.0) 25;2 136.1620 (0.00) 78 1 +test_minimal_medium_linear_benchmark 7,304.2000 (>1000.0) 8,036.4400 (335.41) 7,564.3103 (>1000.0) 128.6291 (242.47) 7,546.8600 (>1000.0) 142.2800 (>1000.0) 19;2 132.1998 (0.00) 78 1 +test_copy_benchmark[optlang-glpk] 13,354.3200 (>1000.0) 330,738.9600 (>1000.0) 18,877.9145 (>1000.0) 37,023.0755 (>1000.0) 13,983.3200 (>1000.0) 1,883.2700 (>1000.0) 1;1 52.9720 (0.00) 73 1 +test_gpr_equality_benchmark 20,186.8400 (>1000.0) 20,888.2400 (871.80) 20,452.6995 (>1000.0) 135.3520 (255.15) 20,443.7600 (>1000.0) 178.9401 (>1000.0) 11;1 48.8933 (0.00) 41 1 +test_deepcopy_benchmark 22,397.1599 (>1000.0) 586,629.3200 (>1000.0) 37,791.9171 (>1000.0) 86,761.3075 (>1000.0) 25,140.4600 (>1000.0) 2,466.2800 (>1000.0) 1;1 26.4607 (0.00) 42 1 +test_single_reaction_deletion_benchmark[glpk] 23,811.5600 (>1000.0) 24,046.3200 (>1000.0) 23,948.9270 (>1000.0) 51.2994 (96.70) 23,953.6600 (>1000.0) 73.6400 (>1000.0) 10;0 41.7555 (0.00) 40 1 +test_fastcc_benchmark[glpk] 55,774.9200 (>1000.0) 309,063.6400 (>1000.0) 73,847.6250 (>1000.0) 62,775.3505 (>1000.0) 56,843.8600 (>1000.0) 4,977.8200 (>1000.0) 1;1 13.5414 (0.00) 16 1 +test_add_metabolite_benchmark[gurobi] 56,048.9600 (>1000.0) 56,375.0000 (>1000.0) 56,136.1053 (>1000.0) 73.9035 (139.31) 56,131.4400 (>1000.0) 55.7600 (>1000.0) 4;2 17.8138 (0.00) 19 1 +test_add_metabolite_benchmark[glpk] 56,259.2800 (>1000.0) 56,455.8800 (>1000.0) 56,345.9368 (>1000.0) 51.8006 (97.65) 56,344.6000 (>1000.0) 70.4500 (>1000.0) 6;0 17.7475 (0.00) 19 1 +test_add_metabolite_benchmark[cplex] 56,352.5599 (>1000.0) 56,627.3600 (>1000.0) 56,453.8800 (>1000.0) 86.0437 (162.20) 56,421.5200 (>1000.0) 133.3300 (>1000.0) 6;0 17.7136 (0.00) 19 1 +test_optgp_init_benchmark 83,523.0800 (>1000.0) 87,488.8800 (>1000.0) 85,183.6933 (>1000.0) 1,503.0863 (>1000.0) 84,523.5000 (>1000.0) 2,772.3400 (>1000.0) 6;0 11.7393 (0.00) 12 1 +test_achr_init_benchmark 83,735.4400 (>1000.0) 88,624.8400 (>1000.0) 86,045.2967 (>1000.0) 1,639.7895 (>1000.0) 86,125.8600 (>1000.0) 2,489.0800 (>1000.0) 4;0 11.6218 (0.00) 12 1 +test_gpr_symbolism_benchmark 127,706.2400 (>1000.0) 132,979.8400 (>1000.0) 129,666.1500 (>1000.0) 1,783.8886 (>1000.0) 129,383.2000 (>1000.0) 2,481.0800 (>1000.0) 3;0 7.7121 (0.00) 8 1 +test_single_gene_deletion_linear_moma_benchmark[glpk] 174,666.0800 (>1000.0) 179,321.0800 (>1000.0) 176,979.8600 (>1000.0) 1,558.8058 (>1000.0) 177,025.4000 (>1000.0) 1,531.7600 (>1000.0) 2;0 5.6504 (0.00) 6 1 +test_flux_variability_loopless_benchmark[glpk] 183,442.4800 (>1000.0) 243,437.7600 (>1000.0) 198,235.5920 (>1000.0) 25,579.1567 (>1000.0) 186,026.1200 (>1000.0) 21,741.9200 (>1000.0) 1;1 5.0445 (0.00) 5 1 +test_double_gene_deletion_benchmark 242,190.2800 (>1000.0) 243,937.9200 (>1000.0) 242,971.3520 (>1000.0) 724.0548 (>1000.0) 243,209.6400 (>1000.0) 1,112.8400 (>1000.0) 2;0 4.1157 (0.00) 5 1 +test_single_gene_deletion_fba_benchmark[glpk] 249,859.5600 (>1000.0) 267,872.6400 (>1000.0) 254,618.2080 (>1000.0) 7,539.0357 (>1000.0) 252,292.4400 (>1000.0) 6,773.1300 (>1000.0) 1;1 3.9274 (0.00) 5 1 +test_single_gene_deletion_linear_room_benchmark[glpk] 252,120.7200 (>1000.0) 259,773.2000 (>1000.0) 255,493.0960 (>1000.0) 2,850.3444 (>1000.0) 255,188.7200 (>1000.0) 3,600.5300 (>1000.0) 2;0 3.9140 (0.00) 5 1 +test_pfba_benchmark[glpk] 267,573.0800 (>1000.0) 270,851.3600 (>1000.0) 269,370.2960 (>1000.0) 1,258.7355 (>1000.0) 269,614.6800 (>1000.0) 1,798.5000 (>1000.0) 2;0 3.7124 (0.00) 5 1 +test_copy_benchmark_large_model[optlang-glpk] 308,549.7600 (>1000.0) 743,559.7600 (>1000.0) 471,387.2560 (>1000.0) 220,180.8899 (>1000.0) 313,299.6800 (>1000.0) 383,593.4500 (>1000.0) 1;0 2.1214 (0.00) 5 1 +test_geometric_fba_benchmark[glpk] 385,486.0000 (>1000.0) 390,881.3200 (>1000.0) 388,415.6880 (>1000.0) 2,459.8253 (>1000.0) 389,786.7200 (>1000.0) 4,204.6500 (>1000.0) 2;0 2.5746 (0.00) 5 1 +test_flux_variability_benchmark[glpk] 436,072.3600 (>1000.0) 437,257.9600 (>1000.0) 436,701.0720 (>1000.0) 479.7801 (904.41) 436,594.1200 (>1000.0) 756.2100 (>1000.0) 2;0 2.2899 (0.00) 5 1 +test_double_reaction_deletion_benchmark 541,267.8400 (>1000.0) 610,673.9200 (>1000.0) 581,230.5600 (>1000.0) 26,214.9134 (>1000.0) 579,526.1200 (>1000.0) 32,624.3100 (>1000.0) 2;0 1.7205 (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 -===== 515 passed, 27 skipped, 11 xfailed, 76 warnings in 122.93s (0:02:02) ===== +===== 515 passed, 27 skipped, 11 xfailed, 76 warnings in 135.85s (0:02:15) ===== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -1988,8 +2024,8 @@ 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 'python3-cobra' in '../python3-cobra_0.29.1-1_arm64.deb'. dpkg-deb: building package 'python-cobra-data' in '../python-cobra-data_0.29.1-1_all.deb'. +dpkg-deb: building package 'python3-cobra' in '../python3-cobra_0.29.1-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../python-cobra_0.29.1-1_arm64.buildinfo dpkg-genchanges --build=binary -O../python-cobra_0.29.1-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1997,12 +2033,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3356183/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3356183/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/3033800 and its subdirectories -I: Current time: Mon Nov 18 05:30:08 -12 2024 -I: pbuilder-time-stamp: 1731951008 +I: removing directory /srv/workspace/pbuilder/3356183 and its subdirectories +I: Current time: Mon Dec 22 13:57:08 +14 2025 +I: pbuilder-time-stamp: 1766361428