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feat: ecMouseGEM #84

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feat: ecMouseGEM #84

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Based on previous successful generation of ecMouseGEM in PRs #80 #81, this PR aims to promote the setup files for this GEM to the master branch.

mihai-sysbio and others added 27 commits February 15, 2021 16:14
@mihai-sysbio
feat: reuse scripts from ecHumanGEM
666739a
@mihai-sysbio
style: update reference to Human-GEM
08be1e6
@mihai-sysbio
feat: a first attempt towards ecMouseGEM
ff58930
@mihai-sysbio
fix: id for the carbon exchange reaciton
bf9cc4a
@mihai-sysbio
fix: set up empty model folder
62ec7cf
@mihai-sysbio
fix: formatting in PR body
5bed492
@IVANDOMENZAIN
chore: update protdatabase file (swissprot entries)
1e79be2
@IVANDOMENZAIN
chore: update protDatabase file with KEGG info for M. musculus
e98e352
@mihai-sysbio
feat: try out specific Mouse-GEM branch
dd43816
@IVANDOMENZAIN
fix: add a temporary model version
a2361c4 
The version field is empty in the source GEM
@IVANDOMENZAIN
fix: ignore multiple protein matches for a given gene in getEnzymeCodes
32d04b6
@IVANDOMENZAIN
fix: bug in DB assignment to multiple conflicting proteins cell
27c6228
@IVANDOMENZAIN
fix: avoid conflicting grRules in preprocessModel
6ebc216
@IVANDOMENZAIN
fix: correct b vector
47fbc33
@IVANDOMENZAIN
fix: correct cSource uptake reaction name
6727f77
@IVANDOMENZAIN
fix: remove getConstrained model step
0f5c130
@IVANDOMENZAIN
fix:generate non-empty ecModel_batch structure
d0e5c3a
@IVANDOMENZAIN
fix: skip SBML saving steps
7029936
@IVANDOMENZAIN
fix: non-empty ecModel_batch
a5b49f3
@IVANDOMENZAIN
fix: change target branch for PRs
0b7f14e
@mihai-sysbio
feat: crash the pipeline if PR creation fails
eb46777
@IVANDOMENZAIN
fix: pr message in hub pull request
a6d20d1
@IVANDOMENZAIN
fix: correct default ub in GEM
4fdabbf
@IVANDOMENZAIN
fix: enable generation of ecModel_batch
cc7a0be
@IVANDOMENZAIN
fix: update calibration parameters ecMouseGEM
c104e03
@IVANDOMENZAIN
fix: skip SBML saving steps
f047680
@IVANDOMENZAIN
fix: enable generation of SBML files
7a911c9
@mihai-sysbio mihai-sysbio changed the base branch from main to develop July 1, 2022 07:26
@mihai-sysbio mihai-sysbio marked this pull request as draft July 1, 2022 07:27
@mihai-sysbio mihai-sysbio changed the base branch from develop to main July 1, 2022 07:44
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