def atomize(self,ticket,xmlFile,atomize): reaction = 'config/reactionDefinitions.json' print ticket try: result = libsbml2bngl.readFromString(xmlFile, reaction,False,None,atomize) self.addToDict(ticket,result) print 'sucess',result except: self.addToDict(ticket,-5) print 'failure'
def atomize(self, bxmlFile,atomize=False,reaction='config/reactionDefinitions.json',species=None): counter = next_id() xmlFile = bxmlFile.data species = 'config/' + species reaction = 'config/reactionDefinitions.json' result = libsbml2bngl.readFromString(xmlFile, reaction,True,None,atomize) return result