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# -*- coding: utf-8 -*-
"""Simulates an example network of 14 cell receiving two kinds of exernal input as defined in configuration file"""
import os, sys
from bmtk.simulator import bionet
def run(config_file):
conf = bionet.Config.from_json(config_file, validate=True)
conf.build_env()
graph = bionet.BioNetwork.from_config(conf)
sim = bionet.BioSimulator.from_config(conf, network=graph)
sim.run()
bionet.nrn.quit_execution()
# Compile NEURON mod files
# Typically these would be located within the components folder, but here they have been placed in a single folder used by all tutorial chapters
os.system('cd ../bionet_files/components/mechanisms/; nrnivmodl modfiles')
# Run simulation
if __name__ == '__main__':
# Find the appropriate config.json file
config_path = None
if __file__ != sys.argv[-1]:
config_path = sys.argv[-1]
if not os.path.exists(config_path):
raise AttributeError('configuration file {} does not exist.'.format(config_path))
else:
for cfg_path in ['config.json', 'config.simulation.json', 'simulation_config.json']:
if os.path.exists(cfg_path):
config_path = cfg_path
break
else:
raise AttributeError('Could not find configuration json file.')
run(config_path)
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