"to_memory": False,
"to_file": True,
"label": "PFPC",
"senders": GR,
"targets": PC
}
WeightPFPC = nest.Create('weight_recorder', params=recdict2)
# Simulation Parameters
#W_file1 = open("Weights_PFPC.dat",'w')
#W_file2 = open("Weights_MFDCN.dat",'w')
#W_file3 = open("Weights_PCDCN.dat",'w')
#aux.Write_Weights(PFPC_conn,MFDCN_conn,PCDCN_conn,W_file1,W_file2,W_file3)
#aux.toc()
aux.tic()
msd = 1000 # master seed
n_vp = nest.GetKernelStatus('total_num_virtual_procs')
msdrange1 = range(msd, msd + n_vp)
pyrngs = [np.random.RandomState(s) for s in msdrange1]
msdrange2 = range(msd + n_vp + 1, msd + 1 + 2 * n_vp)
nest.SetKernelStatus({'grng_seed': msd + n_vp, 'rng_seeds': msdrange2})
print "### SIMULATION STARTS ###"
nest.Simulate(TrialDuration * NumTrial)
#aux.Write_Weights(PFPC_conn,MFDCN_conn,PCDCN_conn,W_file1,W_file2,W_file3)
aux.toc()
#W_file1.close()
#W_file2.close()
#W_file3.close()
def main():
nest.Install("cerebmodule")
# Cell numbers
MF_number = 100
PC_number = 100
DCN_number = 100
''' SIMULATION PROPERTIES '''
CORES = int(sys.argv[1])
''' PROTOCOL SETUP '''
LTP2 = 1.0e-5
LTD2 = -1.0e-1
Init_MFDCN = 1.0
Init_PCDCN = -0.0000000001
aux.tic()
''' VARIABLES INITIALIZATION '''
nest.set_verbosity('M_ERROR')
nest.ResetKernel()
nest.SetKernelStatus({
'local_num_threads': CORES,
'total_num_virtual_procs': CORES,
'resolution': 1.0,
'overwrite_files': True
})
msd = 1000 # master seed
msdrange1 = range(msd, msd + CORES)
pyrngs = [np.random.RandomState(s) for s in msdrange1]
msdrange2 = range(msd + CORES + 1, msd + 1 + 2 * CORES)
nest.SetKernelStatus({'grng_seed': msd + CORES, 'rng_seeds': msdrange2})
MF = nest.Create("iaf_cond_exp", MF_number)
PC = nest.Create("iaf_cond_exp", PC_number)
DCN = nest.Create("iaf_cond_exp", DCN_number)
InputGen = nest.Create("spike_generator", MF_number)
ErrorGen = nest.Create("spike_generator", PC_number)
recdict2 = {
"to_memory": False,
"to_file": True,
"label": "MFDCN",
"senders": MF,
"targets": DCN
}
WeightMFDCN = nest.Create('weight_recorder', params=recdict2)
vt2 = nest.Create("volume_transmitter_alberto", DCN_number)
for n, vti in enumerate(vt2):
nest.SetStatus([vti], {"vt_num": n})
nest.Connect(InputGen, MF, "one_to_one", {
"model": "static_synapse",
"weight": 1000.0,
"delay": 1.0
})
nest.Connect(ErrorGen, PC, "one_to_one", {
"model": "static_synapse",
"weight": 1000.0,
"delay": 1.0
})
PCDCN_conn_param = {
"model": "static_synapse",
"weight": Init_PCDCN,
"delay": 1.0
}
nest.Connect(PC, DCN, "one_to_one", PCDCN_conn_param)
nest.SetDefaults(
'stdp_synapse_cosexp',
{
"A_minus":
LTD2, # double - Amplitude of weight change for depression
"A_plus":
LTP2, # double - Amplitude of weight change for facilitation
"Wmin": 0.0, # double - Minimal synaptic weight
"Wmax": 1.0, # double - Maximal synaptic weight
"vt": vt2[0],
"weight_recorder": WeightMFDCN[0]
})
nest.CopyModel('static_synapse', 'static_synapse_vt')
for i, DCNind in enumerate(DCN):
MFDCN_conn_param = {
"model": 'stdp_synapse_cosexp',
"weight": Init_MFDCN,
"delay": 1.0,
"vt_num": float(i)
}
nest.Connect([MF[i]], [DCNind], "one_to_one", MFDCN_conn_param)
B = nest.GetConnections(PC, [DCNind])
B = np.array(B)
if (len(B) > 0):
source = B[:, 0]
nest.Connect(source.tolist(), [vt2[i]], {"rule": "all_to_all"}, {
'model': 'static_synapse_vt',
'delay': 1.0,
'weight': 1.0
})
# Create Auxiliary tools
recdict = [{
"to_memory": True,
"to_file": True,
"withgid": True,
"withtime": True,
"label": "Spike_Detector_MF"
}, {
"to_memory": True,
"to_file": True,
"withgid": True,
"withtime": True,
"label": "Spike_Detector_PC"
}, {
"to_memory": True,
"to_file": True,
"withgid": True,
"withtime": True,
"label": "Spike_Detector_DCN"
}]
spikedetector = nest.Create("spike_detector", 3, params=recdict)
nest.Connect(MF, [spikedetector[0]])
nest.Connect(PC, [spikedetector[1]])
nest.Connect(DCN, [spikedetector[2]])
# Load input activity on MFs and PCs
for i, InputGeni in enumerate(InputGen):
nest.SetStatus([InputGeni],
{'spike_times': [1.0, 1001.0, 3001 + float(i), 5001.0]})
for i, InputGeni in enumerate(ErrorGen):
nest.SetStatus([InputGeni],
{'spike_times': [1001.0 + float(i), 3000.0]})
aux.toc()
msd = 1000 # master seed
n_vp = nest.GetKernelStatus('total_num_virtual_procs')
msdrange1 = range(msd, msd + n_vp)
pyrngs = [np.random.RandomState(s) for s in msdrange1]
msdrange2 = range(msd + n_vp + 1, msd + 1 + 2 * n_vp)
nest.SetKernelStatus({'grng_seed': msd + n_vp, 'rng_seeds': msdrange2})
print(" - Number synapses: " + str(len(nest.GetConnections())))
print("### SIMULATION STARTS ###")
aux.tic()
nest.Simulate(500.0)
nest.SetStatus(nest.GetConnections(MF, DCN), {'weight': Init_MFDCN})
nest.Simulate(1500.0)
nest.SetStatus(nest.GetConnections(MF, DCN), {'weight': Init_MFDCN})
nest.Simulate(5000.0)
aux.toc()
sys.exit(0) # Everything went fine