def __init__(self, group, when='resets', order=None, event='spike'):
self.event = event
# Since this now works for general events not only spikes, we have to
# pass the information about which variable to use to the template,
# it can not longer simply refer to "_spikespace"
eventspace_name = '_{}space'.format(event)
template_kwds = {'eventspace_variable': group.variables[eventspace_name]}
needed_variables= [eventspace_name]
order = order if order is not None else group.order
CodeRunner.__init__(self, group,
'reset',
code='', # will be set in update_abstract_code
clock=group.clock,
when=when,
order=order,
name=group.name + '_resetter*',
override_conditional_write=['not_refractory'],
needed_variables=needed_variables,
template_kwds=template_kwds)
# Check the abstract code for unit mismatches (only works if the
# namespace is already complete)
try:
self.update_abstract_code(level=1)
check_code_units(self.abstract_code, self.group)
except KeyError:
pass
def __init__(self, group, when='thresholds', event='spike'):
self.event = event
if group._refractory is False or event != 'spike':
template_kwds = {'_uses_refractory': False}
needed_variables = []
else:
template_kwds = {'_uses_refractory': True}
needed_variables=['t', 'not_refractory', 'lastspike']
# Since this now works for general events not only spikes, we have to
# pass the information about which variable to use to the template,
# it can not longer simply refer to "_spikespace"
eventspace_name = '_{}space'.format(event)
template_kwds['eventspace_variable'] = group.variables[eventspace_name]
needed_variables.append(eventspace_name)
CodeRunner.__init__(self, group,
'threshold',
code='', # will be set in update_abstract_code
clock=group.clock,
when=when,
order=group.order,
name=group.name+'_thresholder*',
needed_variables=needed_variables,
template_kwds=template_kwds)
# Check the abstract code for unit mismatches (only works if the
# namespace is already complete)
try:
self.update_abstract_code(level=1)
check_code_units(self.abstract_code, self.group)
except KeyError:
pass
def __init__(self, group):
GroupCodeRunner.__init__(self, group,
'reset',
when=(group.clock, 'resets'),
name=group.name + '_resetter*')
# Check the abstract code for unit mismatches (only works if the
# namespace is already complete)
self.update_abstract_code()
check_code_units(self.abstract_code, self.group, ignore_keyerrors=True)
def get_with_expression(self, variable_name, variable, code,
level=0, run_namespace=None):
'''
Gets a variable using a string expression. Is called by
`VariableView.get_item` for statements such as
``print G.v['g_syn > 0']``.
Parameters
----------
variable_name : str
The name of the variable in its context (e.g. ``'g_post'`` for a
variable with name ``'g'``)
variable : `ArrayVariable`
The `ArrayVariable` object for the variable to be set
code : str
An expression that states a condition for elements that should be
selected. Can contain references to indices, such as ``i`` or ``j``
and to state variables. For example: ``'i>3 and v>0*mV'``.
level : int, optional
How much farther to go up in the stack to find the implicit
namespace (if used, see `run_namespace`).
run_namespace : dict-like, optional
An additional namespace that is used for variable lookup (if not
defined, the implicit namespace of local variables is used).
'''
if variable.scalar:
raise IndexError(('Cannot access the variable %s with a '
'string expression, it is a scalar '
'variable.') % variable_name)
# Add the recorded variable under a known name to the variables
# dictionary. Important to deal correctly with
# the type of the variable in C++
variables = Variables(None)
variables.add_auxiliary_variable('_variable', unit=variable.unit,
dtype=variable.dtype,
scalar=variable.scalar)
variables.add_auxiliary_variable('_cond', unit=Unit(1), dtype=np.bool)
abstract_code = '_variable = ' + variable_name + '\n'
abstract_code += '_cond = ' + code
check_code_units(abstract_code, self,
additional_variables=variables,
level=level+2,
run_namespace=run_namespace)
codeobj = create_runner_codeobj(self,
abstract_code,
'group_variable_get_conditional',
additional_variables=variables,
level=level+2,
run_namespace=run_namespace,
)
return codeobj()
def __init__(self, group):
CodeRunner.__init__(self, group,
'reset',
when=(group.clock, 'resets'),
name=group.name + '_resetter*',
override_conditional_write=['not_refractory'])
# Check the abstract code for unit mismatches (only works if the
# namespace is already complete)
try:
self.update_abstract_code(level=1)
check_code_units(self.abstract_code, self.group)
except KeyError:
pass
def set_with_expression_conditional(self, varname, variable, cond,
code, check_units=True, level=0,
run_namespace=None):
'''
Sets a variable using a string expression and string condition. Is
called by `VariableView.set_item` for statements such as
``S.var['i!=j'] = 'exp(-abs(i-j)/space_constant)*nS'``
Parameters
----------
varname : str
The name of the variable to be set.
variable : `ArrayVariable`
The `ArrayVariable` object for the variable to be set.
cond : str
The string condition for which the variables should be set.
code : str
The code that should be executed to set the variable values.
check_units : bool, optional
Whether to check the units of the expression.
level : int, optional
How much farther to go up in the stack to find the implicit
namespace (if used, see `run_namespace`).
run_namespace : dict-like, optional
An additional namespace that is used for variable lookup (if not
defined, the implicit namespace of local variables is used).
'''
if variable.scalar and cond != 'True':
raise IndexError(('Cannot conditionally set the scalar variable '
'%s.') % varname)
abstract_code_cond = '_cond = '+cond
abstract_code = varname + ' = ' + code
variables = Variables(None)
variables.add_auxiliary_variable('_cond', unit=Unit(1), dtype=np.bool)
check_code_units(abstract_code_cond, self,
additional_variables=variables,
level=level+2,
run_namespace=run_namespace)
# TODO: Have an additional argument to avoid going through the index
# array for situations where iterate_all could be used
codeobj = create_runner_codeobj(self,
{'condition': abstract_code_cond,
'statement': abstract_code},
'group_variable_set_conditional',
additional_variables=variables,
check_units=check_units,
level=level+2,
run_namespace=run_namespace)
codeobj()
def get_with_expression(self, group, variable_name, variable, code, level=0):
'''
Gets a variable using a string expression. Is called by
`VariableView.get_item` for statements such as
``print G.v['g_syn > 0']``.
Parameters
----------
group : `Group`
The group providing the context for the indexing.
variable_name : str
The name of the variable in its context (e.g. ``'g_post'`` for a
variable with name ``'g'``)
variable : `ArrayVariable`
The `ArrayVariable` object for the variable to be set
code : str
An expression that states a condition for elements that should be
selected. Can contain references to indices, such as ``i`` or ``j``
and to state variables. For example: ``'i>3 and v>0*mV'``.
level : int, optional
How much farther to go up in the stack to find the namespace.
'''
# interpret the string expression
namespace = get_local_namespace(level+1)
additional_namespace = ('implicit-namespace', namespace)
# Add the recorded variable under a known name to the variables
# dictionary. Important to deal correctly with
# the type of the variable in C++
variables = Variables(None)
variables.add_auxiliary_variable('_variable', unit=variable.unit,
dtype=variable.dtype,
scalar=variable.scalar,
is_bool=variable.is_bool)
variables.add_auxiliary_variable('_cond', unit=Unit(1), dtype=np.bool,
is_bool=True)
abstract_code = '_variable = ' + variable_name + '\n'
abstract_code += '_cond = ' + code
check_code_units(abstract_code, group,
additional_namespace=additional_namespace,
additional_variables=variables)
codeobj = create_runner_codeobj(group,
abstract_code,
'group_variable_get_conditional',
additional_variables=variables,
additional_namespace=additional_namespace,
)
return codeobj()
def set_with_expression_conditional(self, group, varname, variable, cond,
code, check_units=True, level=0):
'''
Sets a variable using a string expression and string condition. Is
called by `VariableView.set_item` for statements such as
``S.var['i!=j'] = 'exp(-abs(i-j)/space_constant)*nS'``
Parameters
----------
group : `Group`
The group providing the context for the indexing.
varname : str
The name of the variable to be set.
variable : `ArrayVariable`
The `ArrayVariable` object for the variable to be set.
cond : str
The string condition for which the variables should be set.
code : str
The code that should be executed to set the variable values.
check_units : bool, optional
Whether to check the units of the expression.
level : int, optional
How much farther to go up in the stack to find the namespace.
'''
abstract_code_cond = '_cond = '+cond
abstract_code = varname + ' = ' + code
namespace = get_local_namespace(level + 1)
additional_namespace = ('implicit-namespace', namespace)
variables = Variables(None)
variables.add_auxiliary_variable('_cond', unit=Unit(1), dtype=np.bool,
is_bool=True)
check_code_units(abstract_code_cond, group,
additional_variables=variables,
additional_namespace=additional_namespace)
# TODO: Have an additional argument to avoid going through the index
# array for situations where iterate_all could be used
codeobj = create_runner_codeobj(group,
{'condition': abstract_code_cond,
'statement': abstract_code},
'group_variable_set_conditional',
additional_variables=variables,
additional_namespace=additional_namespace,
check_units=check_units)
codeobj()
def __init__(self, group):
if group._refractory is False:
template_kwds = {'_uses_refractory': False}
needed_variables = []
else:
template_kwds = {'_uses_refractory': True}
needed_variables=['t', 'not_refractory', 'lastspike']
GroupCodeRunner.__init__(self, group,
'threshold',
when=(group.clock, 'thresholds'),
name=group.name+'_thresholder*',
needed_variables=needed_variables,
template_kwds=template_kwds)
# Check the abstract code for unit mismatches (only works if the
# namespace is already complete)
self.update_abstract_code()
check_code_units(self.abstract_code, self.group, ignore_keyerrors=True)
def before_run(self, namespace):
self.update_abstract_code()
# If the GroupCodeRunner has variables, add them
if hasattr(self, 'variables'):
additional_variables = self.variables
else:
additional_variables = None
if self.check_units:
check_code_units(self.abstract_code, self.group,
additional_variables, namespace)
self.codeobj = create_runner_codeobj(group=self.group,
code=self.abstract_code,
template_name=self.template,
name=self.name+'_codeobject*',
check_units=self.check_units,
additional_variables=additional_variables,
additional_namespace=namespace,
needed_variables=self.needed_variables,
template_kwds=self.template_kwds)
self.code_objects[:] = [weakref.proxy(self.codeobj)]
def __getitem__(self, item):
if isinstance(item, basestring):
variables = Variables(None)
variables.add_auxiliary_variable("_indices", unit=Unit(1), dtype=np.int32)
variables.add_auxiliary_variable("_cond", unit=Unit(1), dtype=np.bool)
abstract_code = "_cond = " + item
check_code_units(abstract_code, self.group, additional_variables=variables, level=1)
from brian2.devices.device import get_default_codeobject_class
codeobj = create_runner_codeobj(
self.group,
abstract_code,
"group_get_indices",
additional_variables=variables,
level=1,
codeobj_class=get_default_codeobject_class("codegen.string_expression_target"),
)
return codeobj()
else:
return self.indices(item)
def __getitem__(self, item):
if isinstance(item, basestring):
variables = Variables(None)
variables.add_auxiliary_variable('_indices', unit=Unit(1),
dtype=np.int32)
variables.add_auxiliary_variable('_cond', unit=Unit(1),
dtype=np.bool)
abstract_code = '_cond = ' + item
check_code_units(abstract_code, self.group,
additional_variables=variables,
level=1)
codeobj = create_runner_codeobj(self.group,
abstract_code,
'group_get_indices',
additional_variables=variables,
level=1
)
return codeobj()
else:
return self.group.calc_indices(item)
def __init__(self, group):
if group._refractory is False:
template_kwds = {'_uses_refractory': False}
needed_variables = []
else:
template_kwds = {'_uses_refractory': True}
needed_variables=['t', 'not_refractory', 'lastspike']
CodeRunner.__init__(self, group,
'threshold',
when=(group.clock, 'thresholds'),
name=group.name+'_thresholder*',
needed_variables=needed_variables,
template_kwds=template_kwds)
# Check the abstract code for unit mismatches (only works if the
# namespace is already complete)
try:
self.update_abstract_code(level=1)
check_code_units(self.abstract_code, self.group)
except KeyError:
pass
def __getitem__(self, item):
if isinstance(item, basestring):
variables = Variables(None)
variables.add_auxiliary_variable('_indices', unit=Unit(1),
dtype=np.int32)
variables.add_auxiliary_variable('_cond', unit=Unit(1),
dtype=np.bool)
abstract_code = '_cond = ' + item
check_code_units(abstract_code, self.group,
additional_variables=variables,
level=1)
from brian2.devices.device import get_default_codeobject_class
codeobj = create_runner_codeobj(self.group,
abstract_code,
'group_get_indices',
additional_variables=variables,
level=1,
codeobj_class=get_default_codeobject_class('codegen.string_expression_target')
)
return codeobj()
else:
return self.indices(item)
def __init__(self, group):
if group._refractory is False:
template_kwds = {'_uses_refractory': False}
needed_variables = []
else:
template_kwds = {'_uses_refractory': True}
needed_variables=['t', 'not_refractory', 'lastspike']
CodeRunner.__init__(self, group,
'threshold',
code='', # will be set in update_abstract_code
clock=group.clock,
when='thresholds',
order=group.order,
name=group.name+'_thresholder*',
needed_variables=needed_variables,
template_kwds=template_kwds)
# Check the abstract code for unit mismatches (only works if the
# namespace is already complete)
try:
self.update_abstract_code(level=1)
check_code_units(self.abstract_code, self.group)
except KeyError:
pass
def __getitem__(self, item):
if isinstance(item, basestring):
namespace = get_local_namespace(1)
additional_namespace = ('implicit-namespace', namespace)
variables = Variables(None)
variables.add_auxiliary_variable('_indices', unit=Unit(1),
dtype=np.int32)
variables.add_auxiliary_variable('_cond', unit=Unit(1),
dtype=np.bool,
is_bool=True)
abstract_code = '_cond = ' + item
check_code_units(abstract_code, self.group,
additional_namespace=additional_namespace,
additional_variables=variables)
codeobj = create_runner_codeobj(self.group,
abstract_code,
'group_get_indices',
additional_variables=variables,
additional_namespace=additional_namespace,
)
return codeobj()
else:
return self.group.calc_indices(item)