core Package

neuronsimulation Module

class NEURONSimulation(name=None, environment=None, **kwargs)[source]

Bases: morphforge.simulation.base.core.simulation.Simulation

__init__(name=None, environment=None, **kwargs)[source]

_run_no_spawn()[source]

_run_spawn()[source]

_sim_desc_str()[source]

add_cell_backend_specific(cell)[source]

add_currentclamp_backend_specific(cc)[source]

add_gapjunction_backend_specific(gapjunction)[source]

add_recordable_backend_specific(recordable)[source]

add_synapse_backend_specific(synapse)[source]

add_voltageclamp_backend_specific(vc)[source]

run(do_spawn=True)[source]

run_return_random_walks()[source]

_random_walk(t_steps, std_dev)[source]

class redirect_stdout(stdout_stream, stderr_stream)[source]

Bases: object

__enter__()[source]

__exit__(exc_type, exc_value, traceback)[source]

__init__(stdout_stream, stderr_stream)[source]

neuronsimulationenvironment Module

class NEURONEnvironment[source]

Bases: morphforge.simulation.base.core.simulationenvironment.SimulationEnvironment

Cell(**kwargs)[source]

classmethod Channel(chltype, **kwargs)[source]

CurrentClamp(protocol=<class 'morphforge.simulation.base.stimulation.CurrentClampStepChange'>, **kwargs)[source]

GapJunction(**kwargs)[source]

PostSynapticMechTemplate(psm_type, **kwargs)[source]

Simulation(**kwargs)[source]

SimulationSettings(**kwargs)[source]

Synapse(**kwargs)[source]

classmethod SynapticTrigger(triggertype, **kwargs)[source]

VoltageClamp(protocol=<class 'morphforge.simulation.base.stimulation.VoltageClampStepChange'>, **kwargs)[source]

_env_name = 'NEURON'

channels = <morphforge.core.plugindict.PluginDict object>

currentclamps = <morphforge.core.plugindict.PluginDict object>

presynapticmechanisms = <morphforge.core.plugindict.PluginDict object>

synapse_psm_template_type = <morphforge.core.plugindict.PluginDict object>

voltageclamps = <morphforge.core.plugindict.PluginDict object>

neuronsimulationsettings Module

class NEURONSimulationSettings(**kwargs)[source]

Bases: object

__getitem__(key)[source]

__init__(**kwargs)[source]

abstol = 'abstol'

allparams = ('dt', 'tstop', 'cvode', 'reltol', 'abstol', 'strict_modlunit', 'simplify_traces')

cvode = 'cvode'

dt = 'dt'

classmethod get_defaults()[source]

reltol = 'reltol'

simplify_traces = 'simplify_traces'

strict_modlunit = 'strict_modlunit'

tstop = 'tstop'