def extractMoleculeTypes(self,ticket,bnglContents, bnglContents2):
moleculeTypesList = []
for element in [bnglContents, bnglContents2]:
pointer = tempfile.mkstemp(suffix='.bngl', text=True)
with open(pointer[1], 'w') as f:
f.write(element)
print pointer[1]
consoleCommands.setBngExecutable(bngDistro)
consoleCommands.bngl2xml(pointer[1])
xmlFileName = pointer[1].split('.')[0] + '.xml'
xmlFileName = xmlFileName.split(os.sep)[-1]
moleculeTypes, _, _ = readBNGXML.parseXML(xmlFileName)
moleculeTypesList.append(moleculeTypes)
os.remove(xmlFileName)
self.addToDict(ticket, moleculeTypesList)
print 'success', ticket
def extractRulesFromFile(fileName):
species, rules, par = readBNGXML.parseXML(fileName)
return rules
def extractMoleculeTypesFromFile(fileName):
species, rules, par = readBNGXML.parseXML(fileName)
return species