<commit_before>"""

  This package mirrors the one in pyNN

  @file __init__.py
  @author <NAME>

"""

#######################################################################################
#
#    Copyright 2012 Okinawa Institute of Science and Technology (OIST), Okinawa, Japan
#
#######################################################################################

import os
import numpy
import sys
# Remove any system arguments that may conflict with
if '--debug' in sys.argv:
    raise Exception("'--debug' argument passed to script conflicts with an argument to nest, "
                    "causing the import to stop at the NEST prompt")
import pyNN.nest.standardmodels.cells
import pyNN.nest.connectors
import pyNN.core
import pyNN.errors
import pyNN.common
import ninemlp.common.ncml
import ninemlp.common.brep
import ncml
from ninemlp import DEFAULT_BUILD_MODE
from pyNN.nest import setup, run, reset, end, get_time_step, get_current_time, get_min_delay, \
                        get_max_delay, rank, num_processes, StepCurrentSource, ACSource, DCSource, \
                        NoisyCurrentSource
from pyNN.common.control import build_state_queries
import pyNN.nest.simulator
import nest
from nest.hl_api import NESTError

get_current_time, get_time_step, get_min_delay, get_max_delay, num_processes, rank = build_state_queries(pyNN.nest.simulator)

RELATIVE_BREP_BUILD_DIR = './build'

def build_pyNN(build_mode=DEFAULT_BUILD_MODE, silent=True):
    pass # Not required as of yet (this is needed for the neuron module though

class Population(ninemlp.common.Population, pyNN.nest.Population):

    def __init__(self, label, size, cell_type, params={}, build_mode=DEFAULT_BUILD_MODE):
        """
        Initialises the population after reading the population parameters from file
        """
        if build_mode == 'build_only':
            print "Warning! '--build' option was set to 'build_only', meaning the population '%s' was not constructed and only the NMODL files were compiled."
        else:
            pyNN.nest.Population.__init__(self, size, cell_type,
                                          params, structure=None, label=label)

    def set_param(self, cell_id, param, value, component=None, section=None):
        raise NotImplementedError('set_param has not been implemented for Population class yet')

    def rset(self, param, rand_distr, component=None, seg_group=None):
        param_name = ninemlp.common.ncml.group_varname(seg_group)
        if component:
            param_name += '.' + component
        param_name += '.' + param
        self.set(**{param_name: rand_distr})
        
    def initialize_variable(self, param, rand_distr, component=None, seg_group=None):
        param_name = ninemlp.common.ncml.group_varname(seg_group)
        if component:
            param_name += '.' + component
        param_name += '.' + param
        print "WARNING, can't initialise voltage at this stage"
#        self.set(**{param_name: rand_distr})
        
    def _translate_param_name(self, param, component, seg_group):
        if seg_group and seg_group != 'source_section' and seg_group != 'soma':
            raise NotImplementedError("Segment groups are not currently supported for NEST")
        if component:
            try:
                translation = self.get_cell_type().component_translations
            except AttributeError:
                raise Exception("Attempting to set component or segment group parameter on non-"
                                "ninemlp cell type")
            try:
                comp_translation = translation[component]
            except KeyError:
                raise Exception("Cell type '{}' does not have a component '{}'"
                                .format(self.get_cell_type().name, component))
            try:
                param = comp_translation[param][0]
            except KeyError:
                raise Exception("Component '{}' does not have a parameter '{}'"
                                .format(component, param))
        return param

class Projection(pyNN.nest.Projection):

    def __init__(self, pre, dest, label, connector, source=None, target=None, 
                 build_mode=DEFAULT_BUILD_MODE, rng=None):
        self.label = label
        if build_mode == 'build_only':
            print "Warning! '--build' option was set to 'build_only', meaning the projection '%s' was not constructed." % label
        else:
            pyNN.nest.Projection.__init__(self, pre, dest, connector, label=label, source=source,
                                          target=target, rng=rng)
            

class Network(ninemlp.common.Network):

    def __init__(self, filename, build_mode=DEFAULT_BUILD_MODE, timestep=None,
                 min_delay=None, max_delay=None, temperature=None, silent_build=False, flags=[],
                 solver_name='cvode', rng=None):
        self._pyNN_module = pyNN.nest
        self._ncml_module = ncml
        self._Population_class = Population
        self._Projection_class = Projection
        self._GapJunctionProjection_class = None
        self.get_min_delay = get_min_delay # Sets the 'get_min_delay' function for use in the network init<commit_msg>Got through a little bit of getting network to build<commit_after>"""

  This package mirrors the one in pyNN

  @file __init__.py
  @author <NAME>

"""

#######################################################################################
#
#    Copyright 2012 Okinawa Institute of Science and Technology (OIST), Okinawa, Japan
#
#######################################################################################

import os
import numpy
import sys
# Remove any system arguments that may conflict with
if '--debug' in sys.argv:
    raise Exception("'--debug' argument passed to script conflicts with an argument to nest, "
                    "causing the import to stop at the NEST prompt")
import pyNN.nest.standardmodels.cells
import pyNN.nest.connectors
import pyNN.core
import pyNN.errors
import pyNN.common
import ninemlp.common.ncml
import ninemlp.common.brep
import ncml
from ninemlp import DEFAULT_BUILD_MODE
from pyNN.nest import setup, run, reset, end, get_time_step, get_current_time, get_min_delay, \
                        get_max_delay, rank, num_processes, StepCurrentSource, ACSource, DCSource, \
                        NoisyCurrentSource
from pyNN.common.control import build_state_queries
import pyNN.nest.simulator
import nest
from nest.hl_api import NESTError

get_current_time, get_time_step, get_min_delay, get_max_delay, num_processes, rank = build_state_queries(pyNN.nest.simulator)

RELATIVE_BREP_BUILD_DIR = './build'

def build_pyNN(build_mode=DEFAULT_BUILD_MODE, silent=True):
    pass # Not required as of yet (this is needed for the neuron module though

class Population(ninemlp.common.Population, pyNN.nest.Population):

    def __init__(self, label, size, cell_type, params={}, build_mode=DEFAULT_BUILD_MODE):
        """
        Initialises the population after reading the population parameters from file
        """
        if build_mode == 'build_only':
            print "Warning! '--build' option was set to 'build_only', meaning the population '%s' was not constructed and only the NMODL files were compiled."
        else:
            pyNN.nest.Population.__init__(self, size, cell_type,
                                          params, structure=None, label=label)

    def set_param(self, cell_id, param, value, component=None, section=None):
        raise NotImplementedError('set_param has not been implemented for Population class yet')

    def rset(self, param, rand_distr, component=None, seg_group=None):
        param_name = ninemlp.common.ncml.group_varname(seg_group)
        if component:
            param_name += '.' + component
        param_name += '.' + param
        self.set(**{param_name: rand_distr})
        
    def initialize_variable(self, param, rand_distr, component=None, seg_group=None):
        param_name = ninemlp.common.ncml.group_varname(seg_group)
        if component:
            param_name += '.' + component
        param_name += '.' + param
        print "WARNING, can't initialise voltage at this stage"
#        self.set(**{param_name: rand_distr})
        
    def _translate_param_name(self, param, component, seg_group):
        if seg_group and seg_group != 'source_section' and seg_group != 'soma':
            raise NotImplementedError("Segment groups are not currently supported for NEST")
        if component:
            try:
                translation = self.get_cell_type().component_translations
            except AttributeError:
                raise Exception("Attempting to set component or segment group parameter on non-"
                                "ninemlp cell type")
            try:
                comp_translation = translation[component]
            except KeyError:
                raise Exception("Cell type '{}' does not have a component '{}'"
                                .format(self.get_cell_type().name, component))
            try:
                param = comp_translation[param][0]
            except KeyError:
                raise Exception("Component '{}' does not have a parameter '{}'"
                                .format(component, param))
        return param

class Projection(pyNN.nest.Projection):

    def __init__(self, pre, dest, label, connector, synapse_type, source=None, target=None,
                 build_mode=DEFAULT_BUILD_MODE, rng=None):
        self.label = label
        if build_mode == 'build_only':
            print "Warning! '--build' option was set to 'build_only', meaning the projection '%s' was not constructed." % label
        else:
            pyNN.nest.Projection.__init__(self, pre, dest, connector, synapse_type, source=source,
                                          receptor_type=target, label=label)
            

class Network(ninemlp.common.Network):

    def __init__(self, filename, build_mode=DEFAULT_BUILD_MODE, timestep=None,
                 min_delay=None, max_delay=None, temperature=None, silent_build=False, flags=[],
                 solver_name='cvode', rng=None):
        self._pyNN_module = pyNN.nest
        self._ncml_module = ncml
        self._Population_class = Population
        self._Projection_class = Projection
        self._GapJunctionProjection_class = None
        self.get_min_delay = get_min_delay # Sets the 'get_min_delay' function for use in the network init
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