def __init__(self,
simulation=None,
name=None,
does_require_simulation=True,
**kwargs):
if does_require_simulation:
assert simulation is not None
if simulation is not None and not simulation in NamedSimulationObject._obj_names:
NamedSimulationObject._obj_names[simulation] = set()
if not name:
name = ObjectLabeller.get_next_unamed_object_name(
obj_type=NamedSimulationObject, prefix='AnonObj')
if does_require_simulation:
assert not name in NamedSimulationObject._obj_names[
simulation], 'Duplicate name:%s' % name
NamedSimulationObject._obj_names[simulation].add(name)
self._name = name
self._simulation = simulation
super(NamedSimulationObject, self).__init__(**kwargs)
def save_dot(cls, graph, format, **kwargs):
from morphforge.core import ObjectLabeller
name = ObjectLabeller.get_next_unamed_object_name(type(graph))
tmp_dir = LocMgr.get_tmp_path()
fname = '%s/dotout_%s.%s' % (tmp_dir, name, format)
graph.write_pdf(fname, **kwargs)
return fname
def save_dot(cls, graph, format, **kwargs):
from morphforge.core import ObjectLabeller
name = ObjectLabeller.get_next_unamed_object_name(type(graph))
tmp_dir = LocMgr.get_tmp_path()
fname = '%s/dotout_%s.%s' % (tmp_dir, name, format)
graph.write_pdf(fname, **kwargs)
return fname
def __init__(self, **kwargs):
super(Neuron_NeuroUnitEqnsetMechanism, self).__init__(**kwargs)
self.nmodl_txt, self.buildparameters = WriteToNMODL(
self.eqnset,
neuron_suffix="NRNEQNSET" +
ObjectLabeller.get_next_unamed_object_name(
Neuron_NeuroUnitEqnsetMechanism, prefix=""))
assert self.buildparameters.mechanismtype == MechanismType.Distributed
self.units = {}
for (param_str, value) in self._parameters.iteritems():
sym = self.eqnset.get_terminal_obj(param_str)
param_default_unit = self.buildparameters.symbol_units[sym]
self.units[param_str] = param_default_unit.as_quantities_unit()
self.NRNSUFFIX = self.buildparameters.suffix
def __init__(self, **kwargs):
super(NEURONPostSynapticTemplate_NeuroUnitEquationSetPostSynaptic,
self).__init__(**kwargs)
self.is_mod_built = False
self.nmodl_txt, self.buildparameters = WriteToNMODL(
self.eqnset,
neuron_suffix="NRNEQNSETSYN" +
ObjectLabeller.get_next_unamed_object_name(type(self), prefix=""))
assert self.buildparameters.mechanismtype == MechanismType.Point
self.units = {}
for (param_str, value) in self._default_parameters.iteritems():
sym = self.eqnset.get_terminal_obj(param_str)
param_default_unit = self.buildparameters.symbol_units[sym]
self.units[param_str] = param_default_unit.as_quantities_unit()
self.NRNSUFFIX = self.buildparameters.suffix
def __init__(self, simulation=None, name=None, does_require_simulation=True, **kwargs):
if does_require_simulation:
assert simulation is not None
if simulation is not None and not simulation in NamedSimulationObject._obj_names:
NamedSimulationObject._obj_names[simulation] = set()
if not name:
name = ObjectLabeller.get_next_unamed_object_name(
obj_type=NamedSimulationObject,
prefix='AnonObj')
if does_require_simulation:
assert not name in NamedSimulationObject._obj_names[simulation], 'Duplicate name:%s' % name
NamedSimulationObject._obj_names[simulation].add(name)
self._name = name
self._simulation = simulation
super(NamedSimulationObject, self).__init__(**kwargs)
def __init__(self, **kwargs):
super(NEURONPostSynapticTemplate_NeuroUnitEquationSetPostSynaptic, self).__init__( **kwargs)
self.is_mod_built = False
self.nmodl_txt, self.buildparameters = WriteToNMODL(self.eqnset, neuron_suffix="NRNEQNSETSYN"+ObjectLabeller.get_next_unamed_object_name(type(self), prefix=""))
assert self.buildparameters.mechanismtype == MechanismType.Point
self.units = {}
for (param_str, value) in self._default_parameters.iteritems():
sym = self.eqnset.get_terminal_obj(param_str)
param_default_unit = self.buildparameters.symbol_units[sym]
self.units[param_str] = param_default_unit.as_quantities_unit()
self.NRNSUFFIX = self.buildparameters.suffix
def __init__(self, **kwargs):
super(Neuron_NeuroUnitEqnsetMechanism, self).__init__(**kwargs)
self.nmodl_txt, self.buildparameters = WriteToNMODL(self.eqnset, neuron_suffix="NRNEQNSET"+ObjectLabeller.get_next_unamed_object_name(Neuron_NeuroUnitEqnsetMechanism, prefix=""))
assert self.buildparameters.mechanismtype == MechanismType.Distributed
self.units = {}
for (param_str, value) in self._parameters.iteritems():
sym = self.eqnset.get_terminal_obj(param_str)
param_default_unit = self.buildparameters.symbol_units[sym]
self.units[param_str] = param_default_unit.as_quantities_unit()
self.NRNSUFFIX = self.buildparameters.suffix
def __init__(self, **kwargs):
super(NEURONChl_Base, self).__init__(**kwargs)
self.mm_neuronNumber = ObjectLabeller.get_next_count_for_type( NEURONChl_Base)
self.cachedNeuronSuffix = None