from bmtk.builder.networks import NetworkBuilder
import sys
if __name__ == '__main__':
if __file__ != sys.argv[-1]:
inp = sys.argv[-1]
else:
raise Exception("no work" + str(sys.argv[-1]))
amp = float(inp)
net = NetworkBuilder("biophysical")
net.add_nodes(N=1, pop_name='Pyrc',
potental='exc',
model_type='biophysical',
model_template='hoc:L5PCtemplate',
morphology = None)
net.build()
net.save_nodes(output_dir='network')
from bmtk.utils.sim_setup import build_env_bionet
build_env_bionet(base_dir='./', # Where to save the scripts and config files
components_dir='../biophys_components',
network_dir='./network', # Location of directory containing network files
tstop=3000.0, dt=0.1, # Run a simulation for 2000 ms at 0.1 ms intervals
#report_vars=['v'],
#clamp_reports=["se"], # Tells simulator we want to record membrane potential and calcium traces
current_clamp={ # Creates a step current from 500.ms to 1500.0 ms
'amp': amp,
'delay': 500,
'duration': 2500,
'gids':"all"
},
spikes_threshold=-10,
# file_current_clamp={
# "input_file": "PN_IClamp/inputs/amps.h5"
# },
# se_voltage_clamp={
# "amps":[[-70, -70, -70], [-70, -70, -70]],
# "durations": [[2000, 2000, 2000], [2000, 2000, 2000]],
# 'gids': [0, 1],
# 'rs': [0.001, 0.01],
# 'name':"PN_se_clamp"
# },
compile_mechanisms=True # Will try to compile NEURON mechanisms
)