sec.insert('extracellular')
return hobj
add_cell_model(loadHOC, directive='hoc', model_type='biophysical')
add_cell_model(NMLLoad, directive='nml', model_type='biophysical')
add_cell_model(Biophys1,
directive='ctdb:Biophys1',
model_type='biophysical',
overwrite=False)
add_cell_model(Biophys1,
directive='ctdb:Biophys1.hoc',
model_type='biophysical',
overwrite=False)
add_cell_model(IntFire1,
directive='nrn:IntFire1',
model_type='point_process',
overwrite=False)
add_cell_model(IntFire1,
directive='nrn:IntFire1',
model_type='point_neuron',
overwrite=False)
add_cell_processor(aibs_perisomatic, overwrite=False)
add_cell_processor(aibs_allactive, overwrite=False)
add_cell_processor(aibs_perisomatic_directed, overwrite=False)
add_cell_processor(aibs_allactive_directed, overwrite=False)
add_cell_processor(set_extracellular, overwrite=False)
add_cell_processor(set_extracellular, 'extracellular', overwrite=False)
h.execute('create axon[2]', hobj)
for index, sec in enumerate(hobj.axon):
sec.L = 30
sec.diam = axon_diams[index] # 1
hobj.axonal.append(sec=sec)
hobj.all.append(sec=sec) # need to remove this comment
hobj.axon[0].connect(hobj.soma[0], 1.0, 0)
hobj.axon[1].connect(hobj.axon[0], 1.0, 0)
h.define_shape()
def aibs_allactive_granule(hobj, cell, dynamics_params):
# Write custom function for replacing axon with stub
# custom_axons_cut(hobj)
fix_axon_allactive_granule(hobj)
set_params_allactive(hobj, dynamics_params)
return hobj
add_cell_processor(aibs_allactive_granule)
if __name__ == '__main__':
if __file__ != sys.argv[-1]:
run(sys.argv[-1])
else:
run('config.json')