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MotorUnitPool2.py
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MotorUnitPool2.py
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'''
Created on Jul, 28 2015
@author: root
'''
import numpy as np
from MotorUnit import MotorUnit
from MuscularActivation import MuscularActivation
from MuscleNoHill import MuscleNoHill
from MuscleHill import MuscleHill
from scipy.sparse import lil_matrix
import dill
from mpi4py import MPI
MPI.pickle.dumps = dill.dumps
MPI.pickle.loads = dill.loads
import sys
import copy
import itertools
class MotorUnitPool(object):
'''
Class that implements a motor unit pool. Encompasses a set of motor
units that controls a single muscle.
'''
def __init__(self, conf, pool):
'''
Constructor
- Inputs:
+ **conf**: Configuration object with the simulation parameters.
+ **pool**: string with Motor unit pool to which the motor unit belongs.
'''
## Indicates that is Motor Unit pool.
self.kind = 'MU'
## Configuration object with the simulation parameters.
self.conf = conf
## String with Motor unit pool to which the motor unit belongs.
self.pool = pool
MUnumber_S = int(conf.parameterSet('MUnumber_' + pool + '-S', pool, 0))
MUnumber_FR = int(conf.parameterSet('MUnumber_' + pool + '-FR', pool, 0))
MUnumber_FF = int(conf.parameterSet('MUnumber_' + pool + '-FF', pool, 0))
## Number of motor units.
self.MUnumber = MUnumber_S + MUnumber_FR + MUnumber_FF
## List of MotorUnit objects.
self.unit = []
for i in xrange(0, self.MUnumber):
if i < MUnumber_S:
self.unit.append(MotorUnit(conf, pool, i, 'S'))
elif i < MUnumber_S + MUnumber_FR:
self.unit.append(MotorUnit(conf, pool, i, 'FR'))
else:
self.unit.append(MotorUnit(conf, pool, i, 'FF'))
## Vector with the instants of spikes in the soma compartment, in ms.
self.poolSomaSpikes = np.array([])
## Vector with the instants of spikes in the terminal, in ms.
self.poolTerminalSpikes = np.array([])
#activation signal
self.Activation = MuscularActivation(self.conf,self.pool, self.MUnumber,self.unit)
#Force
## String indicating whther a Hill model is used or not. For now, it can be *No*.
self.hillModel = conf.parameterSet('hillModel',pool, 0)
if self.hillModel == 'No':
self.Muscle = MuscleNoHill(self.conf, self.pool, self.MUnumber, MUnumber_S, self.unit)
else:
self.Muscle = MuscleHill(self.conf, self.pool, self.MUnumber, MUnumber_S, self.unit)
##
#print 'Motor Unit Pool ' + pool + ' built'
# MP
# Spawn de dois processos no codigo cprc.py
self.comm = MPI.COMM_SELF.Spawn(sys.executable, args=['cprc.py'], maxprocs=1)
# Merge para juntar todos processos em um so grupo
self.common_comm = self.comm.Merge(False)
# Numero de processos (tamanho do comunicador)
self.size = self.common_comm.Get_size()
print 'size = ' + str(self.size)
# Porcao que cada processo recebe
# Processo pai nao participa (por isso - 1)
self.procSize = len(self.unit) / (self.size - 1)
def atualizeMotorUnitPool(self, t):
'''
Update all parts of the Motor Unit pool. It consists
to update all motor units, the activation signal and
the muscle force.
- Inputs:
+ **t**: current instant, in ms.
'''
t = self.common_comm.bcast (t, root = 0)
for rank in xrange(1, self.size):
self.common_comm.send(self.unit[(rank - 1) * self.procSize:rank * self.procSize], dest=rank, tag=rank)
for rank in xrange(1, self.size):
self.unit[(rank - 1) * self.procSize:rank * self.procSize]=self.common_comm.recv(source=rank,tag=rank)
#self.common_comm.Recv(self.unit[(rank - 1) * self.procSize:rank * self.procSize], source=rank,tag=rank)
# Forma original
#for i in self.unit: i.atualizeMotorUnit(t)
self.Activation.atualizeActivationSignal(t, self.unit)
self.Muscle.atualizeForce(self.Activation.activation_Sat)
def listSpikes(self):
'''
List the spikes that occurred in the soma and in
the terminal of the different motor units.
'''
for i in xrange(0,self.MUnumber):
if i == 0:
somaSpikeTrain = np.array(self.unit[i].somaSpikeTrain)
terminalSpikeTrain = np.array(self.unit[i].terminalSpikeTrain)
else:
somaSpikeTrain = np.append(somaSpikeTrain, np.array(self.unit[i].somaSpikeTrain))
terminalSpikeTrain = np.append(terminalSpikeTrain, np.array(self.unit[i].terminalSpikeTrain))
self.poolSomaSpikes = somaSpikeTrain
self.poolTerminalSpikes = terminalSpikeTrain
self.poolSomaSpikes = np.reshape(self.poolSomaSpikes, (-1, 2))
self.poolTerminalSpikes = np.reshape(self.poolTerminalSpikes, (-1, 2))