Cobrapy¶
- test_writeModelinJSON[source]¶
test writing out a model in SBML with COBRA Toolbox, then reading it in with COBRApy, then writing it out in JSON with COBRApy.
- writeModelinJSON(model, COBRApyPath)[source]¶
write out a model in JSON format using COBRApy
INPUT model
OPTIONAL INPUT dGPredictorPath path to the folder containg a git clone of https://github.com/maranasgroup/dGPredictor
path must be the full absolute path without ~/
cacheName fileName of cache to load (if it exists) or save to (if it does not exist)
OUTPUT success = 1,0
EXTERNAL DEPENDENCIES Python, see: [pyEnvironment,pySearchPath]=initPythonEnvironment(environmentName,reset)
rdkit, e.g., installed in an Anaconda environment https://www.rdkit.org https://www.rdkit.org/docs/Install.html#introduction-to-anaconda
COBRApy https://github.com/opencobra/cobrapy Install COBRApy using this command in a terminal: conda install -c bioconda cobra