Diff of the two buildlogs: -- --- b1/build.log 2025-01-02 13:50:32.201861975 +0000 +++ b2/build.log 2025-01-02 13:54:34.062829836 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Feb 4 08:06:51 -12 2026 -I: pbuilder-time-stamp: 1770235611 +I: Current time: Fri Jan 3 03:50:35 +14 2025 +I: pbuilder-time-stamp: 1735825835 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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/1817605/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3637607/tmp/hooks/D01_modify_environment starting +debug: Running on codethink02-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 Jan 2 13:50 /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/3637607/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3637607/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='070d91ae4d1a4c93bb08104e464287bf' - 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='1817605' - PS1='# ' - PS2='> ' + INVOCATION_ID=acb208017322439f9b105fb3caa703ab + 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=3637607 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.nbBeF6q1/pbuilderrc_vfMk --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.nbBeF6q1/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.nbBeF6q1/pbuilderrc_GSjA --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.nbBeF6q1/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 codethink01-arm64 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1817605/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3637607/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -392,7 +424,7 @@ Get: 220 http://deb.debian.org/debian trixie/main arm64 python3-ruamel.yaml all 0.18.6+ds-3 [145 kB] Get: 221 http://deb.debian.org/debian trixie/main arm64 python3-sbml5 arm64 5.20.2+dfsg-8+b1 [3110 kB] Get: 222 http://deb.debian.org/debian trixie/main arm64 python3-tabulate all 0.9.0-1 [45.9 kB] -Fetched 141 MB in 1s (97.6 MB/s) +Fetched 141 MB in 1s (207 MB/s) Preconfiguring packages ... 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 ... 20080 files and directories currently installed.) @@ -1108,8 +1140,8 @@ Setting up tzdata (2024b-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Feb 4 20:08:10 UTC 2026. -Universal Time is now: Wed Feb 4 20:08:10 UTC 2026. +Local time is now: Thu Jan 2 13:51:10 UTC 2025. +Universal Time is now: Thu Jan 2 13:51:10 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -1329,7 +1361,11 @@ 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/3637607/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3637607/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 @@ -1636,46 +1672,46 @@ -- 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] 3.1199 (1.0) 4,120.1198 (1.00) 6.3736 (1.20) 112.9862 (1.25) 3.2401 (1.01) 0.0801 (2.00) 3;63 156,896.5101 (0.84) 3965 1 -test_subtract_metabolite_benchmark[gurobi] 3.1199 (1.0) 4,110.5999 (1.00) 6.2633 (1.18) 110.9298 (1.22) 3.2000 (1.0) 0.0400 (1.0) 3;221 159,659.6700 (0.85) 4093 1 -test_subtract_metabolite_benchmark[cplex] 3.1600 (1.01) 4,108.1598 (1.0) 5.3271 (1.0) 90.5878 (1.0) 3.2401 (1.01) 0.0806 (2.01) 2;62 187,718.7611 (1.0) 4085 1 -test_achr_sample_benchmark 184.1201 (59.01) 8,671.9203 (2.11) 273.7447 (51.39) 685.5029 (7.57) 192.2601 (60.08) 13.3202 (332.62) 11;100 3,653.0381 (0.02) 842 1 -test_change_objective_benchmark[optlang-glpk] 220.5600 (70.69) 6,063.4799 (1.48) 248.8739 (46.72) 152.3272 (1.68) 230.4800 (72.02) 10.5900 (264.44) 45;356 4,018.0989 (0.02) 2655 1 -test_optgp_sample_benchmark 288.2001 (92.37) 6,269.5597 (1.53) 330.7662 (62.09) 276.3981 (3.05) 298.8998 (93.41) 20.5203 (512.41) 15;84 3,023.2837 (0.02) 1256 1 -test_loopless_benchmark_after 1,300.2800 (416.77) 13,931.3997 (3.39) 3,340.6754 (627.11) 3,136.2733 (34.62) 1,596.4797 (498.90) 4,362.7799 (>1000.0) 41;1 299.3407 (0.00) 275 1 -test_minimal_medium_linear_benchmark 8,480.4799 (>1000.0) 25,775.2398 (6.27) 11,288.3400 (>1000.0) 4,071.1163 (44.94) 9,565.5001 (>1000.0) 2,578.6799 (>1000.0) 9;9 88.5870 (0.00) 74 1 -test_minimal_medium_mip_benchmark 8,484.6001 (>1000.0) 25,407.4801 (6.18) 11,455.9083 (>1000.0) 4,369.2459 (48.23) 9,180.5998 (>1000.0) 3,261.4303 (>1000.0) 12;12 87.2912 (0.00) 65 1 -test_loopless_benchmark_before 10,465.2001 (>1000.0) 18,522.5201 (4.51) 13,876.6523 (>1000.0) 2,068.6186 (22.84) 14,983.0002 (>1000.0) 4,308.3399 (>1000.0) 16;0 72.0635 (0.00) 55 1 -test_copy_benchmark[optlang-glpk] 22,316.4000 (>1000.0) 46,799.4399 (11.39) 30,754.8656 (>1000.0) 6,497.8007 (71.73) 28,381.3202 (>1000.0) 8,062.3101 (>1000.0) 8;1 32.5152 (0.00) 25 1 -test_deepcopy_benchmark 22,707.2402 (>1000.0) 614,895.8397 (149.68) 44,891.7520 (>1000.0) 92,869.3234 (>1000.0) 26,146.7800 (>1000.0) 9,512.6601 (>1000.0) 1;4 22.2758 (0.00) 40 1 -test_gpr_equality_benchmark 38,346.1602 (>1000.0) 64,457.4398 (15.69) 48,384.5756 (>1000.0) 7,472.2664 (82.49) 47,039.2399 (>1000.0) 6,263.6398 (>1000.0) 7;1 20.6677 (0.00) 18 1 -test_single_reaction_deletion_benchmark[glpk] 48,855.8002 (>1000.0) 57,022.3597 (13.88) 49,987.9120 (>1000.0) 2,595.6050 (28.65) 48,947.3401 (>1000.0) 155.6003 (>1000.0) 3;4 20.0048 (0.00) 20 1 -test_add_metabolite_benchmark[glpk] 62,094.1999 (>1000.0) 99,883.7603 (24.31) 79,427.8893 (>1000.0) 12,101.1866 (133.59) 77,587.6399 (>1000.0) 18,030.7799 (>1000.0) 4;0 12.5900 (0.00) 13 1 -test_add_metabolite_benchmark[cplex] 64,970.2800 (>1000.0) 165,548.8000 (40.30) 89,002.9901 (>1000.0) 35,710.4173 (394.21) 73,123.0602 (>1000.0) 27,791.2798 (>1000.0) 1;1 11.2356 (0.00) 8 1 -test_add_metabolite_benchmark[gurobi] 73,185.8402 (>1000.0) 174,008.8002 (42.36) 120,235.1967 (>1000.0) 32,170.1559 (355.13) 112,333.4002 (>1000.0) 31,861.5800 (>1000.0) 5;0 8.3170 (0.00) 12 1 -test_achr_init_benchmark 86,949.6800 (>1000.0) 93,975.5198 (22.88) 90,561.4150 (>1000.0) 2,614.2033 (28.86) 90,978.2001 (>1000.0) 4,132.9800 (>1000.0) 4;0 11.0422 (0.00) 8 1 -test_optgp_init_benchmark 92,516.0800 (>1000.0) 134,117.0403 (32.65) 106,763.0901 (>1000.0) 15,517.3613 (171.30) 101,183.7202 (>1000.0) 22,767.8798 (>1000.0) 2;0 9.3665 (0.00) 8 1 -test_fastcc_benchmark[glpk] 117,749.8796 (>1000.0) 142,443.9596 (34.67) 129,817.2266 (>1000.0) 7,944.1574 (87.70) 126,149.6800 (>1000.0) 8,793.0699 (>1000.0) 3;0 7.7031 (0.00) 9 1 -test_gpr_symbolism_benchmark 138,745.6800 (>1000.0) 295,446.0001 (71.92) 244,967.5040 (>1000.0) 69,495.6721 (767.16) 287,344.4003 (>1000.0) 102,835.0800 (>1000.0) 1;0 4.0822 (0.00) 5 1 -test_single_gene_deletion_linear_moma_benchmark[glpk] 257,097.5600 (>1000.0) 1,267,515.4400 (308.54) 511,726.6240 (>1000.0) 424,198.8328 (>1000.0) 343,907.0396 (>1000.0) 254,893.5597 (>1000.0) 1;1 1.9542 (0.00) 5 1 -test_single_gene_deletion_linear_room_benchmark[glpk] 282,345.3597 (>1000.0) 626,900.6399 (152.60) 474,113.9200 (>1000.0) 174,102.2951 (>1000.0) 556,900.6000 (>1000.0) 331,044.3298 (>1000.0) 2;0 2.1092 (0.00) 5 1 -test_single_gene_deletion_fba_benchmark[glpk] 428,201.7602 (>1000.0) 709,166.8001 (172.62) 571,138.6321 (>1000.0) 118,297.6792 (>1000.0) 622,394.9604 (>1000.0) 190,210.2097 (>1000.0) 2;0 1.7509 (0.00) 5 1 -test_flux_variability_loopless_benchmark[glpk] 493,498.1600 (>1000.0) 551,890.4803 (134.34) 519,840.0241 (>1000.0) 22,723.3718 (250.84) 521,905.4003 (>1000.0) 33,266.8405 (>1000.0) 2;0 1.9237 (0.00) 5 1 -test_pfba_benchmark[glpk] 520,369.8403 (>1000.0) 1,084,633.1199 (264.02) 637,256.4001 (>1000.0) 250,135.8384 (>1000.0) 529,947.7200 (>1000.0) 148,038.3301 (>1000.0) 1;1 1.5692 (0.00) 5 1 -test_double_gene_deletion_benchmark 571,989.6397 (>1000.0) 641,179.2003 (156.07) 594,174.1440 (>1000.0) 30,053.1200 (331.76) 576,023.9200 (>1000.0) 42,384.9802 (>1000.0) 1;0 1.6830 (0.00) 5 1 -test_copy_benchmark_large_model[optlang-glpk] 579,989.4002 (>1000.0) 1,375,224.6401 (334.75) 945,977.3840 (>1000.0) 323,443.1975 (>1000.0) 1,004,714.1998 (>1000.0) 515,891.3200 (>1000.0) 2;0 1.0571 (0.00) 5 1 -test_geometric_fba_benchmark[glpk] 903,683.6401 (>1000.0) 919,434.1600 (223.81) 913,627.9920 (>1000.0) 6,365.6775 (70.27) 914,618.2798 (>1000.0) 9,084.8799 (>1000.0) 1;0 1.0945 (0.00) 5 1 -test_flux_variability_benchmark[glpk] 928,574.1202 (>1000.0) 942,957.6402 (229.53) 936,182.0001 (>1000.0) 6,488.4022 (71.63) 938,307.0404 (>1000.0) 11,760.6800 (>1000.0) 2;0 1.0682 (0.00) 5 1 -test_double_reaction_deletion_benchmark 1,231,932.6000 (>1000.0) 1,391,569.4002 (338.73) 1,285,601.8401 (>1000.0) 68,041.4050 (751.11) 1,248,044.0000 (>1000.0) 96,926.8404 (>1000.0) 1;0 0.7778 (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[gurobi] 3.1600 (1.0) 22.3201 (1.0) 3.2861 (1.0) 0.4134 (1.0) 3.2799 (1.0) 0.0400 (1.0) 20;236 304,315.0423 (1.0) 4220 1 +test_subtract_metabolite_benchmark[cplex] 3.1998 (1.01) 26.8000 (1.20) 3.2920 (1.00) 0.5298 (1.28) 3.2799 (1.0) 0.0400 (1.0) 15;217 303,765.1351 (1.00) 4028 1 +test_subtract_metabolite_benchmark[glpk] 3.1998 (1.01) 26.7199 (1.20) 3.3063 (1.01) 0.5943 (1.44) 3.2799 (1.0) 0.0799 (1.99) 14;75 302,457.2827 (0.99) 3971 1 +test_achr_sample_benchmark 194.5221 (61.56) 363.8021 (16.30) 207.3892 (63.11) 13.4708 (32.59) 201.9219 (61.56) 8.0210 (200.29) 131;136 4,821.8528 (0.02) 861 1 +test_change_objective_benchmark[optlang-glpk] 222.5609 (70.43) 915.0060 (40.99) 241.3709 (73.45) 34.0469 (82.37) 232.6409 (70.93) 12.0098 (299.89) 104;288 4,143.0014 (0.01) 2473 1 +test_optgp_sample_benchmark 288.6020 (91.33) 454.0030 (20.34) 303.1377 (92.25) 14.7264 (35.63) 296.2421 (90.32) 13.5103 (337.36) 197;131 3,298.8306 (0.01) 1227 1 +test_loopless_benchmark_after 1,315.4892 (416.30) 1,770.7320 (79.33) 1,397.8541 (425.39) 54.4045 (131.61) 1,388.0080 (423.19) 61.9109 (>1000.0) 74;9 715.3823 (0.00) 279 1 +test_loopless_benchmark_before 5,828.9170 (>1000.0) 6,380.0011 (285.84) 5,983.0831 (>1000.0) 93.6013 (226.44) 5,970.9579 (>1000.0) 98.8205 (>1000.0) 23;4 167.1379 (0.00) 104 1 +test_minimal_medium_mip_benchmark 8,867.0161 (>1000.0) 9,443.9399 (423.11) 9,128.4718 (>1000.0) 127.2079 (307.74) 9,101.8579 (>1000.0) 162.5211 (>1000.0) 23;0 109.5474 (0.00) 71 1 +test_minimal_medium_linear_benchmark 9,281.7391 (>1000.0) 9,903.9429 (443.72) 9,507.4689 (>1000.0) 121.9844 (295.10) 9,498.2005 (>1000.0) 149.8410 (>1000.0) 21;2 105.1805 (0.00) 68 1 +test_copy_benchmark[optlang-glpk] 13,765.2881 (>1000.0) 356,799.9990 (>1000.0) 19,873.7821 (>1000.0) 40,576.3069 (>1000.0) 14,209.1711 (>1000.0) 2,439.4955 (>1000.0) 1;1 50.3175 (0.00) 71 1 +test_gpr_equality_benchmark 20,278.6899 (>1000.0) 20,903.1329 (936.52) 20,456.4036 (>1000.0) 132.7388 (321.12) 20,453.8906 (>1000.0) 153.5011 (>1000.0) 11;2 48.8844 (0.00) 40 1 +test_deepcopy_benchmark 23,125.1882 (>1000.0) 26,698.6510 (>1000.0) 24,989.4157 (>1000.0) 1,703.4882 (>1000.0) 25,638.2839 (>1000.0) 3,184.9002 (>1000.0) 3;0 40.0169 (0.00) 5 1 +test_single_reaction_deletion_benchmark[glpk] 24,097.1532 (>1000.0) 24,360.2360 (>1000.0) 24,219.3087 (>1000.0) 70.3257 (170.13) 24,229.5546 (>1000.0) 118.5212 (>1000.0) 14;0 41.2894 (0.00) 40 1 +test_add_metabolite_benchmark[gurobi] 56,237.4389 (>1000.0) 56,668.4820 (>1000.0) 56,447.6006 (>1000.0) 99.9093 (241.70) 56,449.0410 (>1000.0) 127.6910 (>1000.0) 5;0 17.7155 (0.00) 19 1 +test_add_metabolite_benchmark[cplex] 56,474.9599 (>1000.0) 56,754.8422 (>1000.0) 56,566.5971 (>1000.0) 63.3097 (153.16) 56,561.9210 (>1000.0) 64.9404 (>1000.0) 4;1 17.6783 (0.00) 19 1 +test_add_metabolite_benchmark[glpk] 56,516.8408 (>1000.0) 56,826.4830 (>1000.0) 56,601.7149 (>1000.0) 74.8773 (181.14) 56,570.1415 (>1000.0) 83.3210 (>1000.0) 3;1 17.6673 (0.00) 18 1 +test_fastcc_benchmark[glpk] 59,124.7769 (>1000.0) 350,021.2361 (>1000.0) 80,115.0129 (>1000.0) 69,637.1246 (>1000.0) 66,112.9020 (>1000.0) 6,692.3029 (>1000.0) 1;1 12.4821 (0.00) 17 1 +test_optgp_init_benchmark 85,012.4219 (>1000.0) 814,130.9170 (>1000.0) 149,282.5731 (>1000.0) 209,408.4001 (>1000.0) 87,833.2215 (>1000.0) 6,437.2205 (>1000.0) 1;1 6.6987 (0.00) 12 1 +test_achr_init_benchmark 85,115.8630 (>1000.0) 90,027.2150 (>1000.0) 87,324.3509 (>1000.0) 1,953.7540 (>1000.0) 87,415.6781 (>1000.0) 3,808.9245 (>1000.0) 6;0 11.4516 (0.00) 12 1 +test_gpr_symbolism_benchmark 129,616.5080 (>1000.0) 133,968.8948 (>1000.0) 131,874.3472 (>1000.0) 1,605.2392 (>1000.0) 132,070.5239 (>1000.0) 2,830.0585 (>1000.0) 3;0 7.5830 (0.00) 8 1 +test_single_gene_deletion_linear_moma_benchmark[glpk] 177,557.6540 (>1000.0) 182,064.7230 (>1000.0) 180,296.9676 (>1000.0) 1,854.6360 (>1000.0) 180,001.5101 (>1000.0) 2,714.1970 (>1000.0) 1;0 5.5464 (0.00) 5 1 +test_double_gene_deletion_benchmark 241,079.1400 (>1000.0) 258,267.0490 (>1000.0) 248,452.5786 (>1000.0) 7,078.9675 (>1000.0) 245,549.1680 (>1000.0) 11,106.6308 (>1000.0) 2;0 4.0249 (0.00) 5 1 +test_single_gene_deletion_fba_benchmark[glpk] 245,401.8481 (>1000.0) 262,816.0790 (>1000.0) 253,080.0406 (>1000.0) 8,249.6891 (>1000.0) 249,107.8312 (>1000.0) 15,006.3862 (>1000.0) 1;0 3.9513 (0.00) 5 1 +test_flux_variability_loopless_benchmark[glpk] 251,150.4830 (>1000.0) 274,731.8340 (>1000.0) 264,717.6183 (>1000.0) 10,276.5652 (>1000.0) 266,067.8988 (>1000.0) 18,165.5957 (>1000.0) 1;0 3.7776 (0.00) 5 1 +test_single_gene_deletion_linear_room_benchmark[glpk] 259,747.4190 (>1000.0) 271,805.4161 (>1000.0) 266,715.8396 (>1000.0) 4,689.6617 (>1000.0) 266,534.8630 (>1000.0) 6,588.6016 (>1000.0) 2;0 3.7493 (0.00) 5 1 +test_pfba_benchmark[glpk] 276,687.7271 (>1000.0) 278,624.5800 (>1000.0) 277,585.9491 (>1000.0) 710.7503 (>1000.0) 277,443.2520 (>1000.0) 843.4964 (>1000.0) 2;0 3.6025 (0.00) 5 1 +test_copy_benchmark_large_model[optlang-glpk] 313,720.0840 (>1000.0) 787,632.0712 (>1000.0) 498,516.4082 (>1000.0) 249,807.1957 (>1000.0) 320,201.0849 (>1000.0) 449,402.1597 (>1000.0) 2;0 2.0060 (0.00) 5 1 +test_geometric_fba_benchmark[glpk] 395,704.9679 (>1000.0) 405,783.5508 (>1000.0) 400,459.1336 (>1000.0) 4,159.0557 (>1000.0) 401,757.0061 (>1000.0) 6,601.4721 (>1000.0) 2;0 2.4971 (0.00) 5 1 +test_flux_variability_benchmark[glpk] 468,640.5931 (>1000.0) 515,114.2499 (>1000.0) 483,931.0426 (>1000.0) 20,628.9274 (>1000.0) 471,785.9330 (>1000.0) 31,218.9494 (>1000.0) 1;0 2.0664 (0.00) 5 1 +test_double_reaction_deletion_benchmark 531,933.9570 (>1000.0) 644,645.1971 (>1000.0) 572,585.8966 (>1000.0) 46,788.6151 (>1000.0) 546,830.1319 (>1000.0) 65,410.5377 (>1000.0) 1;0 1.7465 (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 192.18s (0:03:12) ===== +===== 515 passed, 27 skipped, 11 xfailed, 76 warnings in 123.67s (0:02:03) ===== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -1982,12 +2018,14 @@ 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/3637607/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3637607/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/1817605 and its subdirectories -I: Current time: Wed Feb 4 08:13:30 -12 2026 -I: pbuilder-time-stamp: 1770236010 +I: removing directory /srv/workspace/pbuilder/3637607 and its subdirectories +I: Current time: Fri Jan 3 03:54:33 +14 2025 +I: pbuilder-time-stamp: 1735826073