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KarrLab
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wc_lang
Language for describing whole-cell models as reaction networks
MIT License
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Retain comments and changes in merged submodels
#146
artgoldberg
opened
3 years ago
0
Support single-use transforms
#145
artgoldberg
closed
3 years ago
1
Avoid reaction id collisions in `SplitReversibleReactionsTransform`
#144
artgoldberg
opened
3 years ago
2
Problem with wc_lang_io.Reader error formatting
#143
artgoldberg
opened
3 years ago
0
Problem with wc_lang_io.Reader unit checking
#142
artgoldberg
opened
3 years ago
1
Left and right square brackets reversed
#141
artgoldberg
opened
3 years ago
0
Correct the units for DfbaObjectiveSpecies
#140
YinHoon
closed
4 years ago
1
get_model_summary should be more comprehensive
#139
artgoldberg
opened
4 years ago
0
False positive possible in Model._get_cyclic_deps()
#138
artgoldberg
closed
4 years ago
1
Switching off requirement for uniqueness for SpeciesCoefficient
#137
YinHoon
closed
4 years ago
7
Change reaction arrow from "==>" to `<=>`
#136
jonrkarr
opened
4 years ago
0
Switching off requirement for uniqueness
#135
YinHoon
closed
4 years ago
1
Complete support for Data repo metadata
#134
jonrkarr
opened
4 years ago
0
Fix to freezing first column
#133
jonrkarr
opened
4 years ago
0
Capture additional model metadata
#132
jonrkarr
opened
4 years ago
0
Infer units for numeric literals
#131
artgoldberg
opened
4 years ago
0
Problem converting to SBML
#130
artgoldberg
closed
4 years ago
3
Reduce redundancy in representation of dFBA Reactions
#129
artgoldberg
closed
4 years ago
2
Make templates more usable
#128
artgoldberg
closed
4 years ago
1
Finish supporting bcforms
#127
jonrkarr
opened
4 years ago
0
Simplify and systemize deserialization with grammars
#126
jonrkarr
closed
4 years ago
1
Allow error tolerance for checking element and charge balance
#125
YinHoon
closed
4 years ago
1
Add reaction type attribute
#124
jonrkarr
opened
5 years ago
0
Add optional validation for molecules all defined
#123
jonrkarr
opened
5 years ago
0
Writer support for obj_model migration
#122
artgoldberg
opened
5 years ago
0
bug in io.Reader().run()
#121
artgoldberg
closed
5 years ago
1
delete add_observables branch?
#120
artgoldberg
closed
5 years ago
2
Rate law support for lumped reactions
#119
jonrkarr
opened
5 years ago
1
Use standard metadata models
#118
artgoldberg
opened
5 years ago
0
Support object ids that start with numbers
#117
jonrkarr
closed
5 years ago
1
Support complex species
#116
jonrkarr
opened
5 years ago
0
Add provenance attributes
#115
jonrkarr
opened
5 years ago
0
Integrate provenance with SEPIO
#114
jonrkarr
closed
5 years ago
1
Define declarative mapping between WC-Lang and SBML and refactor SBML export/import
#113
jonrkarr
opened
5 years ago
0
Raise exceptions if SBML is inconsistent with WC-Lang representation
#112
jonrkarr
opened
5 years ago
0
Fix unit compatibility with SBML
#111
jonrkarr
closed
5 years ago
1
Integrate BpForms
#110
jonrkarr
closed
5 years ago
1
Move ontology to separate repo
#109
jonrkarr
closed
5 years ago
1
More metadata for provenance (versions, software, etc.)
#108
jonrkarr
closed
5 years ago
1
Add table of contents worksheet
#107
jonrkarr
closed
5 years ago
1
pH attribute of compartment
#106
jonrkarr
closed
5 years ago
1
Verify protonation state consistent with pH
#105
jonrkarr
opened
5 years ago
0
Add transformation that strips out metadata not needed for simulation
#104
jonrkarr
closed
5 years ago
1
Export provenance, validation as separate XML file to SBML
#103
jonrkarr
opened
5 years ago
0
DatabaseReference.database --> DatabaseReference.namespace
#102
jonrkarr
closed
5 years ago
1
Refactor ontology term equality to use utility method
#101
jonrkarr
closed
5 years ago
1
Add GitHub id for authors
#100
jonrkarr
closed
5 years ago
1
Add SBML import/export to command line
#99
jonrkarr
closed
5 years ago
1
Test get_children / stop_conditions
#98
jonrkarr
closed
5 years ago
1
Add split submodels to command line
#97
jonrkarr
closed
5 years ago
1
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