5497ef65228a48e6d7f89616f9dc683b34458bb9,pysb/importers/bngl.py,BnglBuilder,_parse_monomers,#BnglBuilder#,114

Before Change

                                      "{0}MoleculeType")):
            mon_name = m.get("id")
            sites = []
            states = {}
            for ctype in m.iterfind(_ns("{0}ListOfComponentTypes/"
                                        "{0}ComponentType")):
                c_name = ctype.get("id")
                sites.append(c_name)

After Change

                if states_list is not None:
                    for s in states_list.iterfind(_ns("{}AllowedState")):
                        state = s.get("id")
                        if re.match("[0-9]*$", state):
                            new_state = "_" + state
                            while new_state in states[c_name]:
                                new_state = "_" + new_state
                            self._renamed_states[mon_name][state] = \
                                new_state
                            state = new_state
                        states[c_name].append(state)
                    if self._renamed_states[mon_name]:
                        self._log.info("Monomer "{}" states were renamed as "
                                       "follows: {}".format(

Instances