def _initializeRoadrunner(self):
"""
Initializes the object and does error checking.
Return
------
Roadrunner
"""
try:
rr = te.loads(self.sbmlPath)
except Exception as err:
msg = "sbmlPath is not a valid file path or URL: %s" \
% self.sbmlPath
self.logger.error("_initializeRoadrunner", err)
raise ValueError(msg)
return te.loads(self.sbmlPath)
def modelHeaders(top_model):
"""
:param top_model:
:type top_model:
:return:
:rtype:
"""
r = te.loads(top_model)
print(r.selections)
r.selections = [
'time'
] + sorted(["[{}]".format(sid) for sid in r.getFloatingSpeciesIds()] +
["[{}]".format(sid)
for sid in r.getBoundarySpeciesIds()]) + sorted(
r.getReactionIds()) + sorted(r.getGlobalParameterIds())
print(r.selections)
def output_varaibles(self):
return te.loads(self.get_sbml()).getFloatingSpeciesIds()
def test_loads_str(self):
r = te.loads(self.sbml_str)
self.assertIsNotNone(r)
def test_loads_file(self):
r = te.loads(self.sbml_file)
self.assertIsNotNone(r)
def test_loads_str(self):
r = te.loads(self.sbml_str)
self.assertIsNotNone(r)
def test_loads_file(self):
r = te.loads(self.sbml_file)
self.assertIsNotNone(r)