krlhBlupine/iBioSim
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  • 5038b21226 add starter maven thingy nix katherine rl hearth 2026-02-22 11:27:37 -06:00
  • 19066e7370 make blank files for nix testing katherine rl hearth 2026-02-22 11:20:57 -06:00
  • a170e0e1e0
         Merge pull request #643 from MyersResearchGroup/fixModelGen cjmyers 2025-12-23 10:00:18 -07:00
  • 9de95ab6eb Fix issues with model generation libraries Chris Myers 2025-12-23 09:59:23 -07:00
  • d4d40a9084 Merge branch 'master' of https://github.com/MyersResearchGroup/iBioSim Chris Myers 2024-11-26 20:28:24 -07:00
  • b11268ec9c Updated to suppot later Java versions Chris Myers 2024-11-26 20:27:58 -07:00
  • bd6703583f
         Merge pull request #628 from MyersResearchGroup/UpdateREADME cjmyers 2023-03-28 08:58:41 -06:00
  • d81e0d7532
         Merge pull request #627 from MyersResearchGroup/sbml-to-prism cjmyers 2023-03-28 08:58:07 -06:00
  • 484ae5d58e
         Merge branch 'master' into sbml-to-prism cjmyers 2023-03-28 08:57:59 -06:00
  • a3623c4a34
         Update README.md LukasBuecherl 2023-03-28 15:15:11 +01:00
  • 7e8f2e6f9f Print props file LukasBuecherl 2023-03-28 15:11:14 +01:00
  • 2674494894 Working LukasBuecherl 2023-03-06 12:20:29 +00:00
  • 040aa01d2f Address exception saving movie preferences Chris Myers 2022-10-09 04:00:37 -06:00
  • f74c41aa59 Added a few null pointer checks Chris Myers 2022-10-02 16:59:34 -06:00
  • 4944baf71b Run.java update LukasBuecherl 2022-09-21 08:53:50 -06:00
  • 4bf6c6e1e6 Refactor code for SBML2PRISM LukasBuecherl 2022-07-25 14:27:39 -06:00
  • a93e650de2 refactor LukasBuecherl 2022-07-25 13:39:02 -06:00
  • 8cffc3062b Flatten works LukasBuecherl 2022-07-25 13:28:58 -06:00
  • 1c24b1edc5 Initial work on hierarchy support LukasBuecherl 2022-07-21 14:08:19 -06:00
  • 927062edeb Bound/Unbound option is now available and works LukasBuecherl 2022-07-20 09:26:09 -06:00
  • b8cad2fe48 Added comments to SBML2PRISM LukasBuecherl 2022-07-14 13:15:28 -06:00
  • 5453e5031d Updated Conversion LukasBuecherl 2022-07-14 12:53:08 -06:00
  • 75911f5931 FirstDraft LukasBuecherl 2022-06-24 06:42:38 +02:00
  • 88d02ca2d4 Fix default model conversion parameters Chris Myers 2022-06-23 17:12:47 -06:00
  • b435eb5c87 Updated Files for the Translator LukasBuecherl 2022-06-02 15:17:02 -06:00
  • 518bbc1383 Update jsbml Chris Myers 2022-05-19 06:37:25 -06:00
  • 73196545f6 Updated JSBML Chris Myers 2022-04-21 16:25:26 -06:00
  • 6217a830fb Merge branch 'master' of https://github.com/MyersResearchGroup/iBioSim.git Chris Myers 2022-04-20 16:41:33 -06:00
  • c4ac7ea0ed Added debug Chris Myers 2022-04-20 16:41:17 -06:00
  • 2adf6d6425 Update Converter.java Pedro Fontanarrosa 2022-04-18 12:15:35 -04:00
  • b6aa5bf573 Merge branch 'master' of https://github.com/MyersResearchGroup/iBioSim.git Chris Myers 2022-03-31 15:31:21 -06:00
  • 7672cd24b9 Added stub code Chris Myers 2022-03-31 15:31:04 -06:00
  • c2f67b7035 Update Converter.java Pedro Fontanarrosa 2022-03-18 12:18:26 -06:00
  • fce1d9b464 Merge branch 'master' of https://github.com/MyersResearchGroup/iBioSim.git Chris Myers 2022-03-17 17:50:43 -06:00
  • f94c30f85b Add topModelId field Chris Myers 2022-03-17 17:50:20 -06:00
  • ef759e77c6
         Update Dockerfile LukasBuecherl 2022-01-26 15:49:15 -07:00
  • f3a18eba52
         Update Dockerfile LukasBuecherl 2022-01-26 11:57:49 -07:00
  • 057df25663
         Update Dockerfile LukasBuecherl 2022-01-26 11:54:06 -07:00
  • ab21a08270
         Delete del.txt LukasBuecherl 2022-01-18 13:46:37 -07:00
  • 35d97a1341
         Update Dockerfile LukasBuecherl 2022-01-18 13:45:13 -07:00
  • de0ecf7e13
         Add files via upload LukasBuecherl 2022-01-18 13:42:29 -07:00
  • 368948b360
         Create del.txt LukasBuecherl 2022-01-18 13:41:36 -07:00
  • fce98c6417
         Update Dockerfile LukasBuecherl 2022-01-18 13:36:06 -07:00
  • 1a1973f0dc
         Update Dockerfile LukasBuecherl 2022-01-18 13:26:04 -07:00
  • 7038459437
         Update Dockerfile LukasBuecherl 2022-01-18 13:19:10 -07:00
  • 16685f32a8
         Update Dockerfile LukasBuecherl 2022-01-18 13:16:47 -07:00
  • f3a3bd0f07
         Update Dockerfile LukasBuecherl 2022-01-18 13:13:24 -07:00
  • 4a5f92c89a
         Update Dockerfile LukasBuecherl 2022-01-18 13:09:50 -07:00
  • b763695c4a
         Merge pull request #621 from MyersResearchGroup/LukasBuecherl-docker-image JMante1 2022-01-18 13:07:17 -07:00
  • e5ba0379df
         Create Dockerfile LukasBuecherl 2022-01-18 12:51:55 -07:00
  • de957827df
         Rename main.yml to dockerbuild.yml LukasBuecherl 2022-01-18 12:43:38 -07:00
  • 49892df720
         Create main.yml LukasBuecherl 2022-01-18 12:42:37 -07:00
  • 82c020dddb Fix bug with meta ids Chris Myers 2021-11-30 18:19:36 -07:00
  • a1259bb46a Removed test file Chris Myers 2021-10-18 14:40:05 -06:00
  • 22e9c0524f Update version Chris Myers 2021-07-17 10:41:33 -06:00
  • 4e0ba0a797 Fixes #617 Chris Myers 2021-07-17 10:32:19 -06:00
  • 095ba7c0aa Update Chris Myers 2021-06-24 20:06:34 -06:00
  • d8ea1fc3a0 Add staging Chris Myers 2021-06-24 20:03:50 -06:00
  • ef84149733 Update combine archive Chris Myers 2021-06-24 19:51:02 -06:00
  • 5a9ef3f65d Update combine archive in pom Chris Myers 2021-06-24 19:49:46 -06:00
  • 2344c68d25 Updated pom file Chris Myers 2021-06-24 19:43:04 -06:00
  • fe229873e7 Updated pom files Chris Myers 2021-06-24 19:34:08 -06:00
  • 2a7cc317e5 Update rostock mvn repo Chris Myers 2021-06-23 11:46:05 -06:00
  • ffccbd38f7
         Merge pull request #616 from MyersResearchGroup/Hierachy_Issue cjmyers 2021-04-21 08:54:00 -06:00
  • d518ac2f46 Fixed nullpointerexception in FileTree that resulted in bug when using the collapse/expand hierachy in the project overview. LukasBuecherl 2021-04-14 14:44:40 -06:00
  • f153c326ee Merge branch 'master' of https://github.com/MyersResearchGroup/iBioSim.git Chris Myers 2021-03-18 13:35:14 -06:00
  • 7daeb1d51f Skip generating flat SBML when importing archive Chris Myers 2021-03-18 13:34:55 -06:00
  • fc18b0f714
         Add files via upload LukasBuecherl 2021-03-11 15:00:43 -07:00
  • 8b24d5dd7c Remove old biomodels library Chris Myers 2021-01-13 16:09:53 -07:00
  • e9fa5e478c Merge branch 'master' of https://github.com/MyersResearchGroup/iBioSim.git Chris Myers 2020-10-23 17:20:53 -06:00
  • 6a39d140bc Missing javadoc comment Chris Myers 2020-10-23 17:20:26 -06:00
  • 8e306406dd
         Merge pull request #610 from giarve/master cjmyers 2020-09-28 13:58:16 -06:00
  • 073a6435e7 Add CI with GH Actions and iBioSim.jar as artifact Gil 2020-09-27 18:03:22 +02:00
  • 24423a0826 Remove JSBML dependency Chris Myers 2020-09-10 16:44:07 -06:00
  • e8cde0e3ab Update to SBML Level 3 Version 2 Chris Myers 2020-07-10 12:07:35 -06:00
  • df9ed4e1f4 Change SBOLDesigner version Chris Myers 2020-05-12 09:39:19 -06:00
  • 515c7634a2 Remove objects with same displayId before creating new Chris Myers 2020-05-10 13:37:36 -06:00
  • ca58aa4f9d Fixed an issue with math flattening Chris Myers 2020-04-12 15:17:45 -06:00
  • 896b33ca3b Fix for null pointer sBase Chris Myers 2020-04-12 11:36:12 -06:00
  • cd24e4b7f9 Fixed a couple bugs with updating stoichiometry Chris Myers 2020-04-05 17:02:07 -06:00
  • b6302938aa Merge branch 'master' of https://github.com/MyersResearchGroup/iBioSim.git Chris Myers 2020-04-02 10:37:38 -06:00
  • c7fd0f5ead Updated pointer to manual Chris Myers 2020-04-02 10:37:25 -06:00
  • 9081123a7a Fixed tandem promoter bug Pedro Fontanarrosa 2020-02-12 16:14:59 -03:00
  • 31dbf38cfd
         Merge pull request #597 from MyersResearchGroup/RoadBlocking Fontanapink 2020-02-12 15:00:34 -03:00
  • f90340d965 Fixes to PR #594 for OAuth Chris Myers 2020-02-01 13:01:42 -07:00
  • ab8c49aab4 Reverted bug submission for now Chris Myers 2020-01-29 18:34:35 -07:00
  • 4011273959
         Merge pull request #594 from MyersResearchGroup/bug-reporting cjmyers 2020-01-29 17:28:17 -08:00
  • 2b2e32d3bb New token Zach Zundel 2020-01-29 13:08:22 -08:00
  • 25c35a8643 update bug reporting Zach Zundel 2020-01-29 13:01:54 -08:00
  • 96d3e8e738 Removed TODO tags Pedro Fontanarrosa 2020-01-22 20:01:09 -03:00
  • 7c2074fbfb Ordered promoters Pedro Fontanarrosa 2020-01-18 19:13:00 -03:00
  • e0b7c2a22f Sensor Promoter Roadblock effect Pedro Fontanarrosa 2020-01-17 15:46:50 -03:00
  • 62a2411a49 Updated code to have promoters listed in order Pedro Fontanarrosa 2020-01-16 11:06:59 -03:00
  • 97d125c54f Updated createCelloProductionKineticLaw Pedro Fontanarrosa 2020-01-11 10:03:20 -03:00
  • 4f86b52eee Updated promoterInteractions method Pedro Fontanarrosa 2020-01-11 09:59:48 -03:00
  • 1d53561bc8 Fixed bug for default parameters Pedro Fontanarrosa 2020-01-08 18:26:43 -03:00
  • 828ff0dfb5 Added default parameters for sensor parts Pedro Fontanarrosa 2019-12-26 17:44:35 -03:00
  • b0103411d6 Fix editPart parameters Chris Myers 2019-12-12 10:05:59 -07:00
  • e6b9a2e17e
         Merge pull request #592 from MyersResearchGroup/Default_Parameters Fontanapink 2019-12-12 10:24:51 -03:00
  • f349ecc3c3 Added comments that fix line endings Pedro Fontanarrosa 2019-12-11 15:58:07 -03:00