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5199 commits

Author SHA1 Message Date
Chris Myers
9de95ab6eb Fix issues with model generation libraries 2025-12-23 09:59:23 -07:00
Chris Myers
b11268ec9c Updated to suppot later Java versions 2024-11-26 20:27:58 -07:00
Chris Myers
040aa01d2f Address exception saving movie preferences 2022-10-09 04:00:37 -06:00
Chris Myers
f74c41aa59 Added a few null pointer checks 2022-10-02 16:59:34 -06:00
Chris Myers
22e9c0524f Update version 2021-07-17 10:41:33 -06:00
Chris Myers
4e0ba0a797 Fixes #617 2021-07-17 10:32:19 -06:00
Chris Myers
095ba7c0aa Update 2021-06-24 20:06:34 -06:00
Chris Myers
d8ea1fc3a0 Add staging 2021-06-24 20:03:50 -06:00
Chris Myers
ef84149733 Update combine archive 2021-06-24 19:51:02 -06:00
Chris Myers
2a7cc317e5 Update rostock mvn repo 2021-06-23 11:46:05 -06:00
LukasBuecherl
d518ac2f46 Fixed nullpointerexception in FileTree that resulted in bug when using 
the collapse/expand hierachy in the project overview.
 2021-04-14 14:44:40 -06:00
Chris Myers
8b24d5dd7c Remove old biomodels library 2021-01-13 16:09:53 -07:00
Chris Myers
df9ed4e1f4 Change SBOLDesigner version 2020-05-12 09:39:19 -06:00
Chris Myers
515c7634a2 Remove objects with same displayId before creating new 
Fix run deadlock on errors
 2020-05-10 13:37:36 -06:00
Chris Myers
cd24e4b7f9 Fixed a couple bugs with updating stoichiometry 2020-04-05 17:02:07 -06:00
Chris Myers
c7fd0f5ead Updated pointer to manual 2020-04-02 10:37:25 -06:00
Chris Myers
f90340d965 Fixes to PR #594 for OAuth 2020-02-01 13:01:42 -07:00
Chris Myers
ab8c49aab4 Reverted bug submission for now 2020-01-29 18:34:35 -07:00
Zach Zundel
2b2e32d3bb New token 2020-01-29 13:08:22 -08:00
Zach Zundel
25c35a8643 update bug reporting 2020-01-29 13:01:54 -08:00
Chris Myers
b0103411d6 Fix editPart parameters 2019-12-12 10:05:59 -07:00
Tramy Nguyen
2d61736103 resolved merge conflict for verilogCompiler to master branch 2019-11-24 17:56:26 -05:00
Tramy Nguyen
f9886bb7cf - removed node preselection feature from GUI 2019-11-24 16:45:57 -05:00
Pedro Fontanarrosa
13a41a726e Merge branch 'ModelingGenerator' of https://github.com/MyersResearchGroup/iBioSim into ModelingGenerator 2019-11-06 15:46:43 -03:00
Pedro Fontanarrosa
565ac85d22 Delete .xml 2019-11-06 15:46:03 -03:00
cjmyers
180cc0179e
Merge branch 'master' into ModelingGenerator 2019-11-06 11:36:30 -07:00
Pedro Fontanarrosa
e761635d9e Fixed GUI display 
fixed code that made the pop-up window look weird
 2019-11-04 14:52:31 -03:00
Pedro Fontanarrosa
7ed7c968e7 just space errasing 2019-11-04 12:19:51 -03:00
Pedro Fontanarrosa
e301b76604 Gui option for Cello Modeling 
Added neccesary changes to make cello modeling an option for the user through the Gui interface
 2019-11-01 20:17:16 -03:00
Tramy Nguyen
ced01407d3 set up run for tech map to synthesis view 2019-10-01 13:34:49 -06:00
Tramy Nguyen
5458c21eb7 successful run for yosys but not sbol tech. map 2019-09-27 12:56:15 -06:00
Tramy Nguyen
5600b73925 running atacs without successfully running yosys 2019-09-26 15:59:30 -06:00
Tramy Nguyen
4941fa1a83 fixed verilog synthesis view "save" feature 2019-09-25 16:32:59 -06:00
Tramy Nguyen
e3fb409ec2 load verilog synthesis property 2019-09-25 13:26:16 -06:00
Chris Myers
76879e1885 Fix call to editPart 2019-09-21 10:32:22 +01:00
Tramy Nguyen
beb12214bf refactored sbml and sbol tech map 2019-09-16 23:01:26 -06:00
Tramy Nguyen
df19fd5917 created verilog synthesis view 2019-09-16 18:19:38 -06:00
Tramy Nguyen
70e91ff1c5 add verilog file to project tree 2019-09-16 16:22:14 -06:00
Pedro Fontanarrosa
703b6e9e1a This changes are me trying to re-install previous commit before messing 
up
 2019-09-16 11:38:05 -03:00
Tramy Nguyen
dbe40b6d3a technology mapping tested for covering 2019-08-07 23:20:07 -06:00
Tramy Nguyen
7f978c11cb perform tech. map cover with feedback 2019-06-12 00:55:56 -06:00
Tramy Nguyen
4f37244523 Merge branch 'master' of 
https://github.com/MyersResearchGroup/iBioSim.git into verilogCompiler

Conflicts:
	gui/src/main/java/edu/utah/ece/async/ibiosim/gui/Gui.java
 2019-04-23 17:28:24 -06:00
Chris Myers
22b91c89d6 Move to dataModels 2019-04-20 17:49:26 -06:00
Chris Myers
92830cadcf Merge remote-tracking branch 'mihai/biomodelsREST' into biomodels-upgrade 2019-04-20 17:34:15 -06:00
Chris Myers
b7ab474bd2 Update DNA to DNA_REGION, RNA to RNA_REGION, update jsbml 2019-04-20 17:29:35 -06:00
Tramy Nguyen
6f548c13a3 Test decomposed gates 2019-04-18 01:55:28 -06:00
Mihai Glonț
eda9078f4c migrate to the BioModels REST API 2019-04-08 20:36:25 +01:00
Tramy Nguyen
6caf6a427c fixed decomposed specification 2019-04-06 22:06:19 -06:00
Tramy Nguyen
d907c6f28e fix yosys error 2019-02-09 17:47:40 -07:00
Tramy Nguyen
2111d56e9c support replacedBy and replacement for verilog2sbml 2019-01-15 16:43:30 -07:00