else:
simulator = 'jNeuroML_NEURON'
cont = NeuroMLController('RunOnePyr',
neuroml_file,
'network',
sim_time,
0.01,
simulator,
generate_dir = './temp')
sim_vars = OrderedDict(known_target_values)
t, v = cont.run_individual(sim_vars, show=(not nogui))
print("Have run individual instance...")
peak_threshold = 0
analysis_var = {'peak_delta': 0,
'baseline': 0,
'dvdt_threshold': 0,
'peak_threshold': peak_threshold}
example_run_analysis=analysis.NetworkAnalysis(v,
t,
analysis_var,
start_analysis=0,
end_analysis=sim_time)
1.0808061342038033
}
sim_vars = OrderedDict(vars)
#sim_vars = OrderedDict([])
if '-one' in sys.argv:
simulator = 'jNeuroML_NEURON'
#simulator = 'jNeuroML'
cont = NeuroMLController('TestGran', 'models/GranuleCell.net.nml',
'network_GranuleCell', sim_time, dt,
simulator)
t, v = cont.run_individual(sim_vars, show=False)
analysis = utils.simple_iclamp_analysis(v['Gran/0/Granule_98/v'],
t,
plot=True)
elif '-mone' in sys.argv:
simulator = 'jNeuroML_NEURON'
#simulator = 'jNeuroML'
sim_time = 700
cont = NeuroMLController('TestGranNet',
'models/GranuleCellMulti.net.nml',
'network_GranuleCell_multi', sim_time, dt,
simulator)
num_selected=10,
num_offspring=10,
mutation_rate=0.5,
num_elites=3,
seed=12345,
simulator=simulator,
nogui=nogui,
known_target_values=known_target_values,
)
else:
simulator = "jNeuroML_NEURON"
cont = NeuroMLController("RunOnePyr", neuroml_file, "network", sim_time, 0.01, simulator, generate_dir="./temp")
sim_vars = OrderedDict(known_target_values)
t, v = cont.run_individual(sim_vars, show=(not nogui))
print("Have run individual instance...")
peak_threshold = 0
analysis_var = {"peak_delta": 0, "baseline": 0, "dvdt_threshold": 0, "peak_threshold": peak_threshold}
example_run_analysis = analysis.NetworkAnalysis(v, t, analysis_var, start_analysis=0, end_analysis=sim_time)
analysis = example_run_analysis.analyse()
pp.pprint(analysis)
sim_vars = OrderedDict(vars)
#sim_vars = OrderedDict([])
if '-one' in sys.argv:
simulator = 'jNeuroML_NEURON'
#simulator = 'jNeuroML'
cont = NeuroMLController('TestGran',
'models/GranuleCell.net.nml',
'network_GranuleCell',
sim_time,
dt,
simulator)
t, v = cont.run_individual(sim_vars, show=False)
analysis = utils.simple_iclamp_analysis(v['Gran/0/Granule_98/v'], t, plot=True)
elif '-mone' in sys.argv:
simulator = 'jNeuroML_NEURON'
#simulator = 'jNeuroML'
sim_time = 700
cont = NeuroMLController('TestGranNet',
'models/GranuleCellMulti.net.nml',
'network_GranuleCell_multi',
sim_time,
dt,
simulator)