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Develop #2485

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Please include a short description of enhancement here

I hereby confirm that I have:

  • Tested my code on my own machine
  • Followed the guidelines in the Contributing Guide
  • Selected develop as a target branch (top left drop-down menu)

(Note: You may replace [ ] with [X] to check the box)

MetNetComp and others added 30 commits February 10, 2025 11:55
@MetNetComp
TrimGdel folder is added to ~/src/design/
cbfa3f1
@MetNetComp
TrimGdel folder is added to ~/src/design/
7b35ad2
@MetNetComp
TrimGdel folder is added to ~/src/design/
7f21015
@rmtfleming
update Function Docs (Automatic Workflow)
6aa81b9
@rmtfleming
local changes post test
9415d7c
@rmtfleming
Merge branch 'develop' of github.com:rmtfleming/cobratoolbox into dev…
61026c5 
…elop
@MetNetComp
COBRAmodels:fire:code headers:art: add tutorials
d0f82d4
@farid-zare
Merge pull request #2455 from opencobra/master
ea515a7 
Update develop branch
@farid-zare
update Function Docs (Automatic Workflow)
a5bf6a3
@bramnap
Minor bugfixes for Persephone
90de3c8
@farid-zare
Merge pull request #2456 from bramnap/develop
b967fd3 
Minor bugfixes for Persephone
@trjhensen
PSCM toolbox loadPSCMfile function bug fix and merge conflict resolve
1f5cfa1
@farid-zare
Merge pull request #2459 from trjhensen/develop
eccd899 
PSCM toolbox loadPSCMfile function bug fix and merge conflict resolve
@farid-zare
Update metanetxMapper.m
8446ab9 
Set timeout time to 30 seconds
@farid-zare
Merge pull request #2460 from farid-zare/fix_metanetxmapper
c32c694 
Update metanetxMapper.m
@bramnap
Merge branch 'opencobra:develop' into develop
c6f9826
@bramnap
minor bugfix persephone
a99c313
@bramnap
add gitkeep files to have default folders in seqc
4bf1ceb
@bramnap
bugfix
f3d496a
@bramnap
Merge branch 'develop' of https://github.com/bramnap/cobratoolbox int…
1b2bebe 
…o develop
@bramnap
minor fix to analyseWBMsol for gf iWBM scaling
bc622d1
@farid-zare
Merge pull request #2461 from bramnap/develop
5082c58 
Bugfix for miWBM naming in Persephone
@farid-zare
Update the tutorials folder
bb37ba4
@rmtfleming
Merge pull request #2458 from Yanjun2021/debug_createDummyModel
9456446 
Debug function 'createDummyModel'
@bramnap
bugFix initPersephone
aa9bbd0
@farid-zare
generateRules
65441d3
@farid-zare
Update generateRules
57ba95a
@rmtfleming
efba improvements
f34b112
@rmtfleming
Resolved merge conflict by accepting remote changes for conflicting f…
322c50a 
…iles only
@farid-zare
add removeGeneVersions.m
2b1100b
farid-zare added 19 commits June 3, 2025 14:02
@farid-zare
Move testStoichiometricConsistency to verified tests
c0abf6e
@farid-zare
Move SAMMI code to verified tests
12e3f01
@farid-zare
Move relaxedFBA to verified tests
ad54fc6
@farid-zare
Move testOpti to deprecated
85a02e9
@farid-zare
move testModels to deprecated
0f6e17d
@farid-zare
Move testMaps to verified tests
73c4d9f
@farid-zare
Move ICONGEMs to deprecated
30deedd
@farid-zare
Add testHillFormula to verified tests
725a451
@farid-zare
Move fastcc to deprecated
8b4b6c9
@farid-zare
restructure testing folder
96fddd1
@farid-zare
Fix testConvertOldStyleModel
333b2fd
@farid-zare
Debug testOptCardinality and testMinCardinalityConservationRelaxation…
8eeacbe 
…Vector
@farid-zare
Add statistics toolbox dependency for testSammi
c296be4
@farid-zare
Rename old test script
b57c1a0
@farid-zare
Update prepare test and testMetanetxMapper
63d774f
@farid-zare
Update testMPS.m
ca55dcc
@farid-zare
Update testSteadyCom
c9541b7
@farid-zare
Move testModelManipulation to deprecated-should be fixed in future
ffae6f7
@farid-zare
Merge pull request #2486 from CCThinnes/develop
d7f61c4 
Bug fixes for Persephone pipeline
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Summary:

Tests 📝 Passed ✅ Failed ❌ Skipped ⏭️
238 190 1 47

Failed Tests:

Failed Tests ❌ Fail Message
❌ : testMetanetxMapper.m Assertion failed.

Github Test Reporter by CTRF 💚

@github-actions GitHub Actions
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Summary:

Tests 📝 Passed ✅ Failed ❌ Skipped ⏭️
238 189 2 47

Failed Tests:

Failed Tests ❌ Fail Message
❌ : testSparseLP.m Assertion failed.
❌ : testMetanetxMapper.m Assertion failed.

Github Test Reporter by CTRF 💚

@github-actions GitHub Actions
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Summary:

Tests 📝 Passed ✅ Failed ❌ Skipped ⏭️
250 198 0 52

Failed Tests:

No failed tests ✨

Github Test Reporter by CTRF 💚

@github-actions GitHub Actions
Copy link
Contributor

Summary:

Tests 📝 Passed ✅ Failed ❌ Skipped ⏭️
250 198 0 52

Failed Tests:

No failed tests ✨

Github Test Reporter by CTRF 💚

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9 participants
@rmtfleming @MetNetComp @farid-zare @bramnap @trjhensen @Yanjun2021 @TheWileyB @CCThinnes @pavan-kumar-s