#================================================================================
# Computer Simulation 4 with current-based synapses and no short-term plasticity
# from Legenstein, R., Pecevski, D. and Maass, W., A Learning Theory
# for Reward-Modulated Spike-Timing-Dependent Plasticity with
# Application to Biofeedback
#
# Author: Dejan Pecevski, dejan@igi.tugraz.at
#
# Date: February 2008
#
#================================================================================
import sys
from sys import *
import os
from pypcsim import *
import pypcsimplus as pcsim
from numpy import *
import random, getopt
import numpy
from datetime import datetime
from math import *
from tables import *
from math import exp
from mpi4py import MPI
from ReadoutModel import *
from TemplateInputModelKernelRwd import *
class PatternRewardSTDPExperiment(pcsim.Experiment):
def defaultExpParameters(self):
ep = self.expParams
# General simulation parameters
ep.DTsim = 1e-4
ep.nTrainEpochs = 100
ep.nTestEpochs = 10
ep.trialT = 3
# Network distribution parameters
ep.netType = 'ST'
ep.nThreads = 1
ep.minDelay = 1e-3
ep.maxDelay = 2
# Seeds of the experiment
ep.numpyRandomSeed = 31342
ep.pyRandomSeed = 124243
ep.constructionSeed = 3224356
ep.simulationSeed = 134252439
ep.runMode = "long"
ep.input = "TemplateInputModelKernelRwd"
ep.recordReadoutVm = True
ep.testWithNoise = True
ep.numTrialsWithoutThreshold = 10
ep.numTrialsRecordVm = 20
def setupModels(self):
p = self.modelParams
ep = self.expParams
m = self.models
net = self.net
random.seed(ep.pyRandomSeed)
numpy.random.seed(ep.numpyRandomSeed)
m.input = eval(ep.input + '(self.net, self.expParams, p.get("input",{}))')
ep.Tsim = ep.nTrainEpochs * ep.trialT
ep.samplingTime = int(ep.Tsim / (200 * ep.DTsim))
m.input.generate()
# create the readout model
m.readout = ReadoutModel(self.net, self.expParams, p.get("readout", {}), depModels = m.input.elements)
m.readout.generate()
m.input.connectReadout(m.readout)
def setupRecordings(self):
r = self.recordings
r.input = self.models.input.setupRecordings()
r.readout = self.models.readout.setupRecordings()
return r
def simulate(self):
ep = self.expParams
ep.samplingTime = int(ep.Tsim / (200 * ep.DTsim))
m = self.models
currEpoch = 0
# Run simulation
print 'Running simulation:', datetime.today().strftime('%x %X')
t0=datetime.today()
self.net.reset();
m.readout.setTestPhase()
m.readout.increaseThreshold()
m.readout.printSamplingTime()
print "Test Before Learning:"
while currEpoch < ep.nTestEpochs:
if currEpoch % 10 == 0:
stdout.write(str(currEpoch))
else:
stdout.write(".")
m.input.reset(currEpoch)
self.net.advance(int(ep.trialT / ep.DTsim))
if ep.recordReadoutVm and currEpoch == ep.numTrialsRecordVm:
m.readout.switchOffRecordVmReadout()
if ep.recordReadoutVm and currEpoch == ep.numTrialsWithoutThreshold:
m.readout.setNormalThreshold()
currEpoch += 1
m.readout.setTrainPhase()
print "Train Epoch: "
while currEpoch < ep.nTrainEpochs + ep.nTestEpochs:
if currEpoch % 10 == 0:
stdout.write(str(currEpoch))
else:
stdout.write(".")
m.input.reset(currEpoch)
self.net.advance(int(ep.trialT / ep.DTsim))
currEpoch += 1
m.readout.setTestPhase()
print "Test Epoch: "
while currEpoch < ep.nTrainEpochs + 2*ep.nTestEpochs:
if currEpoch % 10 == 0:
stdout.write(str(currEpoch))
else:
stdout.write(".")
m.input.reset(currEpoch)
self.net.advance(int(ep.trialT / ep.DTsim))
if ep.recordReadoutVm and currEpoch == ep.nTrainEpochs + 2*ep.nTestEpochs - ep.numTrialsRecordVm:
m.readout.switchOnRecordVmReadout()
if ep.recordReadoutVm and currEpoch == ep.nTrainEpochs + 2*ep.nTestEpochs - ep.numTrialsWithoutThreshold:
m.readout.increaseThreshold()
currEpoch += 1
t1=datetime.today()
print 'Done.', (t1-t0).seconds, 'sec CPU time for', ep.Tsim, 's simulation time';
self.expParams.simDuration = (t1 - t0).seconds
def scriptList(self):
return ["PatternRewardSTDPExperiment.py"]
if __name__ == "__main__":
numpySeedArray = [134381, 653434368, 2043436, 68688, 24213123, 61886]
if len(sys.argv) > 1:
runName = "final_"
seedNo = int(sys.argv[1])
if len(sys.argv) > 2:
directory = sys.argv[2]
else:
directory = "final_dir_" + datetime.today().strftime("%Y%m%d_%H%M%S")
exper = PatternRewardSTDPExperiment('PatternRewardSTDP',
experParams = {"numpyRandomSeed" : numpySeedArray[seedNo],
"nTrainEpochs":1000, "nTestEpochs":60},
modelParams = {"readout":{}},
directory = directory)
exper.run(runName+ "_" + sys.argv[1])
else:
exper = PatternRewardSTDPExperiment('PatternRewardSTDP',
experParams = {"numpyRandomSeed" : 4468,
"nTrainEpochs":100, "nTestEpochs":30, "runMode" : "short",
"input" : "TemplateInputModelKernelRwd"} )
exper.run("shortrun")