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#!/usr/bin/python3
import libsbml
import sys
def print_gene_product_association(file_name):
doc = libsbml.readSBMLFromFile(file_name)
assert (isinstance(doc, libsbml.SBMLDocument))
if doc.getNumErrors(libsbml.LIBSBML_SEV_ERROR) > 0:
print("There were errors while reading, better to fix those first")
doc.printErrors()
sys.exit(1)
model = doc.getModel()
if model is None:
print("document has no model, bailing")
num_reactions = model.getNumReactions()
print(" Model: %s" % model.getName())
print("# reactions: %d" % num_reactions)
for reaction in model.getListOfReactions():
print(" Reaction: %s" % reaction.getId())
plugin = reaction.getPlugin('fbc')
if plugin is None:
# not relevant for us
continue
if not plugin.isSetGeneProductAssociation():
continue
gpa = plugin.getGeneProductAssociation()
association = gpa.getAssociation()
print (" Association: %s" % association.toInfix())
print("done")
if __name__ == "__main__":
argc = len(sys.argv)
model_file = 'iJO1366.xml.gz'
if argc > 1:
model_file = sys.argv[1]
print_gene_product_association(model_file)
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