def build_hh_cell(sim, cell_area=None):
if cell_area is None:
cell_area = unit('5000:um2')
morphology = MorphologyBuilder.get_single_section_soma(area=cell_area)
cell = sim.create_cell(morphology=morphology)
# Apply the channels uniformly over the cell
env = sim.environment
modelsrc = StandardModels.HH52
cell.apply_channel(
ChannelLibrary.get_channel(modelsrc=modelsrc,
celltype=None,
channeltype="Na",
env=env))
cell.apply_channel(
ChannelLibrary.get_channel(modelsrc=modelsrc,
celltype=None,
channeltype="K",
env=env))
cell.apply_channel(
ChannelLibrary.get_channel(modelsrc=modelsrc,
celltype=None,
channeltype="Lk",
env=env))
return cell
def __init__(self, morphology=None, area=None, segmenter=None, initial_voltage=None, cell_tags=None, cell_type=None, **kwargs):
if area is not None:
assert morphology is None
morphology = MorphologyBuilder.get_single_section_soma(area=area)
if cell_tags == None:
cell_tags = []
from morphforge.simulation.base.segmentation.cellsegmenter import CellSegmenter_MaxCompartmentLength
super(Cell, self).__init__(**kwargs)
self.morphology = morphology
self._cell_type = cell_type
self.cell_segmenter = (segmenter if segmenter else CellSegmenter_MaxCompartmentLength())
#self.cell_segmenter.connect_to_cell(self)
self.biophysics = CellBiophysics(self)
self.initial_voltage = initial_voltage or qty('-51:mV')
self.cell_tags = cell_tags
if self.name:
self.cell_tags = self.cell_tags + [self.name]
self.population = None
def __init__(self, morphology=None, area=None, segmenter=None, initial_voltage=None, cell_tags=None, cell_type=None, **kwargs):
if area is not None:
assert morphology is None
morphology = MorphologyBuilder.get_single_section_soma(area=area)
if cell_tags == None:
cell_tags = []
from morphforge.simulation.base.segmentation.cellsegmenter import CellSegmenter_MaxCompartmentLength
super(Cell, self).__init__(**kwargs)
self.morphology = morphology
self._cell_type = cell_type
self.cell_segmenter = (segmenter if segmenter else CellSegmenter_MaxCompartmentLength())
self.cell_segmenter.connect_to_cell(self)
self.biophysics = CellBiophysics(self)
self.initial_voltage = initial_voltage or unit('-51:mV')
self.cell_tags = cell_tags
if self.name:
self.cell_tags = self.cell_tags + [self.name]
self.population = None
def build_hh_cell(sim, cell_area=None):
if cell_area is None:
cell_area = unit('5000:um2')
morphology = MorphologyBuilder.get_single_section_soma(area = cell_area)
cell = sim.create_cell(morphology=morphology)
# Apply the channels uniformly over the cell
env = sim.environment
modelsrc=StandardModels.HH52
cell.apply_channel( ChannelLibrary.get_channel(modelsrc=modelsrc, celltype=None, channeltype="Na", env=env) )
cell.apply_channel( ChannelLibrary.get_channel(modelsrc=modelsrc, celltype=None, channeltype="K", env=env) )
cell.apply_channel( ChannelLibrary.get_channel(modelsrc=modelsrc, celltype=None, channeltype="Lk", env=env) )
return cell