def test_roundtrip_nested(self):
global nested_example
model = nested_example
f = tempfile.TemporaryFile()
model.write(f)
f.seek(0)
model1 = parse(f)
f.close()
assert model == model1
def __init__(self, sim, nineml_model):
"""
Instantiate a network from a 9ML file, in the specified simulator.
"""
global random_distributions
self.sim = sim
if isinstance(nineml_model, basestring):
self.nineml_model = nineml.parse(nineml_model)
elif isinstance(nineml_model, nineml.Model):
self.nineml_model = nineml_model
else:
raise TypeError("nineml_model must be a nineml.Model instance or the path to a NineML XML file.")
self.random_distributions = {}
self.assemblies = {}
self.projections = {}
_tmp = __import__(sim.__name__, globals(), locals(), ["nineml"])
self._nineml_module = _tmp.nineml
self._build()
def readModel(self, filename, target):
if isinstance(target, str):
if not moose.exists(target):
target = moose.Neutral(target)
elif isinstance(target, moose.NeutralArray):
target = target._id
elif isinstance(target, moose.Neutral):
target = target._oid.getId()
elif not (isinstance(target, moose.Id) or isinstance(target, moose.ObjId)):
raise TypeError('Target must be a string or an Id or an ObjId or a moose object.')
# current = moose.getCwe() - until the moose unit test bugs are fixed
self._moose_root = target
with open(filename) as model_file:
model = ninemlul.parse(model_file)
model.check()
spiking_nodes = {}
projections = {}
synapses = {}
for name, component in model.components.items():
if isinstance(component, ninemlul.SpikingNodeType):
spiking_nodes[name] = component
print spiking_nodes.keys()
moose.setCwe(target)
# We instantiate the model here. TODO: components are
# actually prototypes, we need to make copies of them when
# creating Groups
for name, node in spiking_nodes.items():
if node.definition.url == 'http://svn.incf.org/svn/nineml/trunk/catalog/neurons/IaF_tau.xml':
moose_object = self._create_LeakyIaF(node)
self._moose_to_nineml[moose_object] = node
self._nineml_to_moose[node] = moose_object
elif node.definition.url == 'http://svn.incf.org/svn/nineml/trunk/catalog/neurons/Iz1.xml':
moose_object = self._create_IzhikevichNeuron(node)
self._moose_to_nineml[moose_object] = node
self._nineml_to_moose[node] = moose_object
