Esempio n. 1
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 def BuildSpecification_(self):
     self.model_specification = pyncs.ModelSpecification()
     self.model_specification.model_parameters = (
         pyncs.string_to_model_parameters_map(self.model_parameters))
     self.model_specification.neuron_groups = (
         pyncs.string_to_neuron_group_map(self.neuron_groups))
     self.model_specification.neuron_aliases = (
         pyncs.string_to_neuron_alias_map(self.neuron_aliases))
     self.model_specification.synapse_groups = (
         pyncs.string_to_synapse_group_map(self.synapse_groups))
     self.model_specification.synapse_aliases = (
         pyncs.string_to_synapse_alias_map(self.synapse_aliases))
     return True
Esempio n. 2
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 def BuildSpecification_(self):
   self.model_specification = pyncs.ModelSpecification()
   self.model_specification.model_parameters = (
     pyncs.string_to_model_parameters_map(self.model_parameters)
   )
   self.model_specification.neuron_groups = (
     pyncs.string_to_neuron_group_map(self.neuron_groups)
   )
   self.model_specification.neuron_aliases = (
     pyncs.string_to_neuron_alias_map(self.neuron_aliases)
   )
   self.model_specification.synapse_groups = (
     pyncs.string_to_synapse_group_map(self.synapse_groups)
   )
   self.model_specification.synapse_aliases = (
     pyncs.string_to_synapse_alias_map(self.synapse_aliases)
   )
   return True
Esempio n. 3
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File: ncs.py Progetto: starhxh/ncs
    def init(self, argv):
        self.model_specification = pyncs.ModelSpecification()
        self.model_specification.thisown = False
        #self.model_specification.model_parameters = (
        #     pyncs.string_to_model_parameters_map(self.model_parameters)
        #   )
        neuron_group_map = {}
        for name, cell_group in self.cell_groups.items():
            model_parameters = self.getNeuronParameters(cell_group.parameters)
            if not model_parameters:
                print "ModelParameters %s not found" % cell_group.parameters
                return False
            neuron_group = pyncs.NeuronGroup(cell_group.count,
                                             model_parameters,
                                             cell_group.geometry)
            cell_group.neuron_group = neuron_group
            neuron_group.thisown = False
            neuron_group_map[name] = neuron_group
        self.model_specification.neuron_groups = (
            pyncs.string_to_neuron_group_map(neuron_group_map))
        for name, alias in self.cell_aliases.items():
            if not alias.resolved:
                if not self.resolveCellAlias_(alias):
                    print "Failed to resolve CellAlias %s" % name
                    return False
            neuron_groups = [x.neuron_group for x in alias.subgroups]
            neuron_group_list = pyncs.neuron_group_list(neuron_groups)
            alias.neuron_alias = pyncs.NeuronAlias(neuron_group_list)
        neuron_alias_map = {
            n: a.neuron_alias
            for n, a in self.cell_aliases.items()
        }
        self.model_specification.neuron_aliases = (
            pyncs.string_to_neuron_alias_map(neuron_alias_map))

        connection_map = {}
        for name, connection in self.connections.items():
            if not connection.presynaptic.resolved:
                if not self.resolveCellAlias_(connection.presynaptic):
                    print "Invalid presynaptic group in connection %s" % name
                    return False
            if not connection.postsynaptic.resolved:
                if not self.resolveCellAlias_(connection.postsynaptic):
                    print "Invalid postsynaptic group in connection %s" % name
                    return False
            model_parameters = self.getSynapseParameters(connection.parameters)
            if not model_parameters:
                print "ModelParameters %s not found" % connection.parameters
                return False

            group = pyncs.neuron_group_list
            presynaptic_neuron_groups = [
                x.neuron_group for x in connection.presynaptic.subgroups
            ]
            presynaptic = group(
                [x.neuron_group for x in connection.presynaptic.subgroups])
            postsynaptic = group(
                [x.neuron_group for x in connection.postsynaptic.subgroups])
            synapse_group = pyncs.SynapseGroup(presynaptic, postsynaptic,
                                               model_parameters,
                                               connection.probability)
            connection.synapse_group = synapse_group
            synapse_group.thisown = False
            connection_map[name] = synapse_group
        self.model_specification.synapse_groups = (
            pyncs.string_to_synapse_group_map(connection_map))

        for name, alias in self.connection_aliases.items():
            if not alias.resolved:
                if not self.resolveConnectionAlias_(alias):
                    print "Failed to resolve ConnectionAlias %s" % name
                    return False
            synapse_groups = [x.synapse_group for x in alias.subgroups]
            synapse_group_list = pyncs.synapse_group_list(synapse_groups)
            alias.synapse_alias = pyncs.SynapseAlias(synapse_group_list)
        synapse_alias_map = {
            n: a.synapse_alias
            for n, a in self.connection_aliases.items()
        }
        self.model_specification.synapse_aliases = (
            pyncs.string_to_synapse_alias_map(synapse_alias_map))

        self.simulation = pyncs.Simulation(self.model_specification,
                                           self.simulaton_parameters)
        return self.simulation.init(pyncs.string_list(argv))
Esempio n. 4
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  def init(self, argv):
    self.model_specification = pyncs.ModelSpecification()
    self.model_specification.thisown = False
#self.model_specification.model_parameters = (
#     pyncs.string_to_model_parameters_map(self.model_parameters)
#   )
    neuron_group_map = {}
    for name, cell_group in self.cell_groups.items():
      model_parameters = self.getNeuronParameters(cell_group.parameters)
      if not model_parameters:
        print "ModelParameters %s not found" % cell_group.parameters
        return False
      neuron_group = pyncs.NeuronGroup(cell_group.count,
                                       model_parameters,
                                       cell_group.geometry)
      cell_group.neuron_group = neuron_group
      neuron_group.thisown = False
      neuron_group_map[name] = neuron_group
    self.model_specification.neuron_groups = (
      pyncs.string_to_neuron_group_map(neuron_group_map)
    )
    for name, alias in self.cell_aliases.items():
      if not alias.resolved:
        if not self.resolveCellAlias_(alias):
          print "Failed to resolve CellAlias %s" % name
          return False
      neuron_groups = [x.neuron_group for x in alias.subgroups]
      neuron_group_list = pyncs.neuron_group_list(neuron_groups)
      alias.neuron_alias = pyncs.NeuronAlias(neuron_group_list)
    neuron_alias_map = { n : a.neuron_alias 
                         for n, a in self.cell_aliases.items() }
    self.model_specification.neuron_aliases = (
      pyncs.string_to_neuron_alias_map(neuron_alias_map)
    )

    connection_map = {}
    for name, connection in self.connections.items():
      if not connection.presynaptic.resolved:
        if not self.resolveCellAlias_(connection.presynaptic):
          print "Invalid presynaptic group in connection %s" % name
          return False
      if not connection.postsynaptic.resolved:
        if not self.resolveCellAlias_(connection.postsynaptic):
          print "Invalid postsynaptic group in connection %s" % name
          return False
      model_parameters = self.getSynapseParameters(connection.parameters)
      if not model_parameters:
        print "ModelParameters %s not found" % connection.parameters
        return False

      group = pyncs.neuron_group_list
      presynaptic_neuron_groups = [x.neuron_group 
                                   for x in connection.presynaptic.subgroups]
      presynaptic = group([x.neuron_group 
                           for x in connection.presynaptic.subgroups])
      postsynaptic = group([x.neuron_group
                            for x in connection.postsynaptic.subgroups])
      synapse_group = pyncs.SynapseGroup(presynaptic,
                                         postsynaptic,
                                         model_parameters,
                                         connection.probability)
      connection.synapse_group = synapse_group
      synapse_group.thisown = False
      connection_map[name] = synapse_group
    self.model_specification.synapse_groups = (
      pyncs.string_to_synapse_group_map(connection_map)
    )

    for name, alias in self.connection_aliases.items():
      if not alias.resolved:
        if not self.resolveConnectionAlias_(alias):
          print "Failed to resolve ConnectionAlias %s" % name
          return False
      synapse_groups = [x.synapse_group for x in alias.subgroups]
      synapse_group_list = pyncs.synapse_group_list(synapse_groups)
      alias.synapse_alias = pyncs.SynapseAlias(synapse_group_list)
    synapse_alias_map = { n : a.synapse_alias
                          for n, a in self.connection_aliases.items() }
    self.model_specification.synapse_aliases = (
      pyncs.string_to_synapse_alias_map(synapse_alias_map)
    )
  
    self.simulation = pyncs.Simulation(self.model_specification,
                                       self.simulaton_parameters)
    return self.simulation.init(pyncs.string_list(argv))