logger = mpi.setup_logger(screen=True, file_name='neurokernel.log',
mpi_comm=MPI.COMM_WORLD, multiline=True)
man = Manager()
m1_int_sel_in_gpot = '/a/in/gpot0,/a/in/gpot1'
m1_int_sel_out_gpot = '/a/out/gpot0,/a/out/gpot1'
m1_int_sel_in_spike = '/a/in/spike0,/a/in/spike1'
m1_int_sel_out_spike = '/a/out/spike0,/a/out/spike1'
m1_int_sel = ','.join([m1_int_sel_in_gpot, m1_int_sel_out_gpot,
m1_int_sel_in_spike, m1_int_sel_out_spike])
m1_int_sel_in = ','.join((m1_int_sel_in_gpot, m1_int_sel_in_spike))
m1_int_sel_out = ','.join((m1_int_sel_out_gpot, m1_int_sel_out_spike))
m1_int_sel_gpot = ','.join((m1_int_sel_in_gpot, m1_int_sel_out_gpot))
m1_int_sel_spike = ','.join((m1_int_sel_in_spike, m1_int_sel_out_spike))
N1_gpot = SelectorMethods.count_ports(m1_int_sel_gpot)
N1_spike = SelectorMethods.count_ports(m1_int_sel_spike)
m2_int_sel_in_gpot = '/b/in/gpot0,/b/in/gpot1'
m2_int_sel_out_gpot = '/b/out/gpot0,/b/out/gpot1'
m2_int_sel_in_spike = '/b/in/spike0,/b/in/spike1'
m2_int_sel_out_spike = '/b/out/spike0,/b/out/spike1'
m2_int_sel = ','.join([m2_int_sel_in_gpot, m2_int_sel_out_gpot,
m2_int_sel_in_spike, m2_int_sel_out_spike])
m2_int_sel_in = ','.join((m2_int_sel_in_gpot, m2_int_sel_in_spike))
m2_int_sel_out = ','.join((m2_int_sel_out_gpot, m2_int_sel_out_spike))
m2_int_sel_gpot = ','.join((m2_int_sel_in_gpot, m2_int_sel_out_gpot))
m2_int_sel_spike = ','.join((m2_int_sel_in_spike, m2_int_sel_out_spike))
N2_gpot = SelectorMethods.count_ports(m2_int_sel_gpot)
N2_spike = SelectorMethods.count_ports(m2_int_sel_spike)
class BasePortMapper(object):
"""
Maps integer sequence to/from path-like port identifiers.
Examples
--------
>>> pm = BasePortMapper('/[a,b][0:2]')
>>> print pm.ports_to_inds('/b[0:2]')
array([2, 3])
>>> print pm.inds_to_ports([0, 1])
[('a', 0), ('a', 1)]
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]) to map to `data`.
portmap : sequence of int
Integer indices to map to port identifiers. If no map is specified,
it is assumed to be an array of consecutive integers from 0
through one less than the number of ports.
Attributes
----------
index : pandas.MultiIndex
Index of port identifiers.
portmap : pandas.Series
Map of port identifiers to integer indices.
Notes
-----
The selectors may not contain any '*' or '[:]' characters.
A single port identifier may be mapped to multiple integer indices,
but not vice-versa.
"""
def __init__(self, selector, portmap=None):
self.sel = SelectorMethods()
N = self.sel.count_ports(selector)
if portmap is None:
self.portmap = pd.Series(data=np.arange(N))
else:
assert len(portmap) == N
self.portmap = pd.Series(data=np.array(portmap))
self.portmap.index = self.sel.make_index(selector)
def copy(self):
"""
Return copy of this port mapper.
Returns
-------
result : neurokernel.plsel.BasePortMapper
Copy of port mapper instance.
"""
c = BasePortMapper('')
c.portmap = self.portmap.copy()
return c
@classmethod
def from_index(cls, idx, portmap=None):
"""
Create port mapper from a Pandas index and a sequence of integer indices.
Parameters
----------
index : pandas.MultiIndex
Index containing selector data.
portmap : sequence of int
Integer indices to map to port identifiers. If no map is specified,
it is assumed to be an array of consecutive integers from 0
through one less than the number of ports.
Returns
-------
result : neurokernel.plsel.BasePortMapper
New port mapper instance.
Notes
-----
If specified, the portmap sequence is copied into the new mapper to avoid
side effects associated with modifying the specified sequence after
mapper instantiation.
"""
pm = cls('')
N = len(idx)
if portmap is None:
pm.portmap = pd.Series.from_array(np.arange(N), idx)
else:
assert len(portmap) == N
pm.portmap = pd.Series.from_array(np.array(portmap), idx)
return pm
@classmethod
def from_pm(cls, pm):
"""
Create a new port mapper instance given an existing instance.
Parameters
----------
result : neurokernel.plsel.BasePortMapper
Existing port mapper instance.
Returns
-------
result : neurokernel.plsel.BasePortMapper
New port mapper instance.
"""
assert isinstance(pm, cls)
r = cls('')
r.portmap = pm.portmap.copy()
return r
@property
def index(self):
"""
Port mapper index.
"""
return self.portmap.index
@index.setter
def index(self, i):
self.portmap.index = i
def inds_to_ports(self, inds):
"""
Convert list of integer indices to port identifiers.
Examples
--------
>>> pm = BasePortMapper('/[a,b][0:2]')
>>> print pm.inds_to_ports([0, 1])
[('a', 0), ('a', 1)]
Parameters
----------
inds : array_like of int
Integer indices of ports.
Returns
-------
t : list of tuple
Expanded port identifiers.
"""
return self.portmap[self.portmap.isin(inds)].index.tolist()
def ports_to_inds(self, selector):
"""
Convert port selector to list of integer indices.
Examples
--------
>>> pm = BasePortMapper('/[a,b][0:2]')
>>> print pm.ports_to_inds('/b[0:2]')
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]).
Returns
-------
inds : numpy.ndarray of int
Integer indices of ports comprised by selector.
"""
return self.sel.select(self.portmap,
selector).dropna().astype(np.int_).values
def get_map(self, selector):
"""
Retrieve integer indices associated with selector.
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]).
Returns
-------
result : numpy.ndarray
Selected data.
"""
return np.asarray(self.sel.select(self.portmap, selector).dropna())
def set_map(self, selector, portmap):
"""
Set mapped integer index associated with selector.
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]).
portmap : sequence of int
Integer indices to map to port identifiers.
"""
self.portmap[self.sel.get_index(self.portmap, selector)] = portmap
def equals(self, pm):
"""
Check whether this mapper is equivalent to another mapper.
Parameters
----------
pm : neurokernel.plsel.BasePortMapper
Mapper to compare to this mapper.
Returns
-------
result : bool
True if the specified port mapper contains the same port
identifiers as this instance and maps them to the same integer
values.
Notes
-----
The port identifiers and maps in the specified port mapper need not be
in the same order as this instance to be deemed equal.
"""
assert isinstance(pm, BasePortMapper)
pm0 = self.portmap.sort_values()
pm1 = pm.portmap.sort_values()
if np.array_equal(pm0.values, pm1.values) and \
pm0.index.equals(pm1.index):
return True
else:
return False
def __len__(self):
return self.portmap.size
def __repr__(self):
return 'Map:\n----\n' + self.portmap.__repr__()
def emulate(n, steps):
assert(n>1)
n = str(n)
# Set up emulation:
man = Manager(get_random_port(), get_random_port(), get_random_port())
man.add_brok()
m1_int_sel_in_gpot = '/a/in/gpot0,/a/in/gpot1'
m1_int_sel_out_gpot = '/a/out/gpot0,/a/out/gpot1'
m1_int_sel_in_spike = '/a/in/spike0,/a/in/spike1'
m1_int_sel_out_spike = '/a/out/spike0,/a/out/spike1'
m1_int_sel = ','.join([m1_int_sel_in_gpot, m1_int_sel_out_gpot,
m1_int_sel_in_spike, m1_int_sel_out_spike])
m1_int_sel_in = ','.join([m1_int_sel_in_gpot, m1_int_sel_in_spike])
m1_int_sel_out = ','.join([m1_int_sel_out_gpot, m1_int_sel_out_spike])
m1_int_sel_gpot = ','.join([m1_int_sel_in_gpot, m1_int_sel_out_gpot])
m1_int_sel_spike = ','.join([m1_int_sel_in_spike, m1_int_sel_out_spike])
N1_gpot = SelectorMethods.count_ports(m1_int_sel_gpot)
N1_spike = SelectorMethods.count_ports(m1_int_sel_spike)
m1 = MyModule(m1_int_sel,
m1_int_sel_in, m1_int_sel_out,
m1_int_sel_gpot, m1_int_sel_spike,
np.zeros(N1_gpot, np.float64),
np.zeros(N1_spike, int), ['interface', 'io', 'type'],
man.port_data, man.port_ctrl, man.port_time, 'm1', None,
False, True)
man.add_mod(m1)
m2_int_sel_in_gpot = '/b/in/gpot0,/b/in/gpot1'
m2_int_sel_out_gpot = '/b/out/gpot0,/b/out/gpot1'
m2_int_sel_in_spike = '/b/in/spike0,/b/in/spike1'
m2_int_sel_out_spike = '/b/out/spike0,/b/out/spike1'
m2_int_sel = ','.join([m2_int_sel_in_gpot, m2_int_sel_out_gpot,
m2_int_sel_in_spike, m2_int_sel_out_spike])
m2_int_sel_in = ','.join([m2_int_sel_in_gpot, m2_int_sel_in_spike])
m2_int_sel_out = ','.join([m2_int_sel_out_gpot, m2_int_sel_out_spike])
m2_int_sel_gpot = ','.join([m2_int_sel_in_gpot, m2_int_sel_out_gpot])
m2_int_sel_spike = ','.join([m2_int_sel_in_spike, m2_int_sel_out_spike])
N2_gpot = SelectorMethods.count_ports(m2_int_sel_gpot)
N2_spike = SelectorMethods.count_ports(m2_int_sel_spike),
m2 = MyModule(m2_int_sel,
m2_int_sel_in, m2_int_sel_out,
m2_int_sel_gpot, m2_int_sel_spike,
np.zeros(N2_gpot, np.float64),
np.zeros(N2_spike, int), ['interface', 'io', 'type'],
man.port_data, man.port_ctrl, man.port_time, 'm2', None,
False, True)
man.add_mod(m2)
# Make sure that all ports in the patterns' interfaces are set so
# that they match those of the modules:
pat12 = Pattern(m1_int_sel, m2_int_sel)
pat12.interface[m1_int_sel_out_gpot] = [0, 'in', 'gpot']
pat12.interface[m1_int_sel_in_gpot] = [0, 'out', 'gpot']
pat12.interface[m1_int_sel_out_spike] = [0, 'in', 'spike']
pat12.interface[m1_int_sel_in_spike] = [0, 'out', 'spike']
pat12.interface[m2_int_sel_in_gpot] = [1, 'out', 'gpot']
pat12.interface[m2_int_sel_out_gpot] = [1, 'in', 'gpot']
pat12.interface[m2_int_sel_in_spike] = [1, 'out', 'spike']
pat12.interface[m2_int_sel_out_spike] = [1, 'in', 'spike']
pat12['/a/out/gpot0', '/b/in/gpot0'] = 1
pat12['/a/out/gpot1', '/b/in/gpot1'] = 1
pat12['/b/out/gpot0', '/a/in/gpot0'] = 1
pat12['/b/out/gpot1', '/a/in/gpot1'] = 1
pat12['/a/out/spike0', '/b/in/spike0'] = 1
pat12['/a/out/spike1', '/b/in/spike1'] = 1
pat12['/b/out/spike0', '/a/in/spike0'] = 1
pat12['/b/out/spike1', '/a/in/spike1'] = 1
man.connect(m1, m2, pat12, 0, 1)
# To set the emulation to exit after executing a fixed number of steps,
# start it as follows and remove the sleep statement:
man.start(steps=steps)
# man.start()
# time.sleep(2)
man.stop()
return m1
man = Manager()
m1_int_sel_in_gpot = '/a/in/gpot0,/a/in/gpot1'
m1_int_sel_out_gpot = '/a/out/gpot0,/a/out/gpot1'
m1_int_sel_in_spike = '/a/in/spike0,/a/in/spike1'
m1_int_sel_out_spike = '/a/out/spike0,/a/out/spike1'
m1_int_sel = ','.join([
m1_int_sel_in_gpot, m1_int_sel_out_gpot, m1_int_sel_in_spike,
m1_int_sel_out_spike
])
m1_int_sel_in = ','.join((m1_int_sel_in_gpot, m1_int_sel_in_spike))
m1_int_sel_out = ','.join((m1_int_sel_out_gpot, m1_int_sel_out_spike))
m1_int_sel_gpot = ','.join((m1_int_sel_in_gpot, m1_int_sel_out_gpot))
m1_int_sel_spike = ','.join((m1_int_sel_in_spike, m1_int_sel_out_spike))
N1_gpot = SelectorMethods.count_ports(m1_int_sel_gpot)
N1_spike = SelectorMethods.count_ports(m1_int_sel_spike)
m2_int_sel_in_gpot = '/b/in/gpot0,/b/in/gpot1'
m2_int_sel_out_gpot = '/b/out/gpot0,/b/out/gpot1'
m2_int_sel_in_spike = '/b/in/spike0,/b/in/spike1'
m2_int_sel_out_spike = '/b/out/spike0,/b/out/spike1'
m2_int_sel = ','.join([
m2_int_sel_in_gpot, m2_int_sel_out_gpot, m2_int_sel_in_spike,
m2_int_sel_out_spike
])
m2_int_sel_in = ','.join((m2_int_sel_in_gpot, m2_int_sel_in_spike))
m2_int_sel_out = ','.join((m2_int_sel_out_gpot, m2_int_sel_out_spike))
m2_int_sel_gpot = ','.join((m2_int_sel_in_gpot, m2_int_sel_out_gpot))
m2_int_sel_spike = ','.join((m2_int_sel_in_spike, m2_int_sel_out_spike))
N2_gpot = SelectorMethods.count_ports(m2_int_sel_gpot)
class BasePortMapper(object):
"""
Maps integer sequence to/from path-like port identifiers.
Examples
--------
>>> pm = BasePortMapper('/[a,b][0:2]')
>>> print pm.ports_to_inds('/b[0:2]')
array([2, 3])
>>> print pm.inds_to_ports([0, 1])
[('a', 0), ('a', 1)]
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]) to map to `data`.
portmap : sequence of int
Integer indices to map to port identifiers. If no map is specified,
it is assumed to be an array of consecutive integers from 0
through one less than the number of ports.
Attributes
----------
index : pandas.MultiIndex
Index of port identifiers.
portmap : pandas.Series
Map of port identifiers to integer indices.
Notes
-----
The selectors may not contain any '*' or '[:]' characters.
A single port identifier may be mapped to multiple integer indices,
but not vice-versa.
"""
def __init__(self, selector, portmap=None):
self.sel = SelectorMethods()
N = self.sel.count_ports(selector)
if portmap is None:
self.portmap = pd.Series(data=np.arange(N))
else:
assert len(portmap) == N
self.portmap = pd.Series(data=np.array(portmap))
self.portmap.index = self.sel.make_index(selector)
def copy(self):
"""
Return copy of this port mapper.
Returns
-------
result : neurokernel.plsel.BasePortMapper
Copy of port mapper instance.
"""
c = BasePortMapper('')
c.portmap = self.portmap.copy()
return c
@classmethod
def from_index(cls, idx, portmap=None):
"""
Create port mapper from a Pandas index and a sequence of integer indices.
Parameters
----------
index : pandas.MultiIndex
Index containing selector data.
portmap : sequence of int
Integer indices to map to port identifiers. If no map is specified,
it is assumed to be an array of consecutive integers from 0
through one less than the number of ports.
Returns
-------
result : neurokernel.plsel.BasePortMapper
New port mapper instance.
Notes
-----
If specified, the portmap sequence is copied into the new mapper to avoid
side effects associated with modifying the specified sequence after
mapper instantiation.
"""
pm = cls('')
N = len(idx)
if portmap is None:
pm.portmap = pd.Series.from_array(np.arange(N), idx)
else:
assert len(portmap) == N
pm.portmap = pd.Series.from_array(np.array(portmap), idx)
return pm
@classmethod
def from_pm(cls, pm):
"""
Create a new port mapper instance given an existing instance.
Parameters
----------
result : neurokernel.plsel.BasePortMapper
Existing port mapper instance.
Returns
-------
result : neurokernel.plsel.BasePortMapper
New port mapper instance.
"""
assert isinstance(pm, cls)
r = cls('')
r.portmap = pm.portmap.copy()
return r
@property
def index(self):
"""
Port mapper index.
"""
return self.portmap.index
@index.setter
def index(self, i):
self.portmap.index = i
def inds_to_ports(self, inds):
"""
Convert list of integer indices to port identifiers.
Examples
--------
>>> pm = BasePortMapper('/[a,b][0:2]')
>>> print pm.inds_to_ports([0, 1])
[('a', 0), ('a', 1)]
Parameters
----------
inds : array_like of int
Integer indices of ports.
Returns
-------
t : list of tuple
Expanded port identifiers.
"""
return self.portmap[self.portmap.isin(inds)].index.tolist()
def ports_to_inds(self, selector):
"""
Convert port selector to list of integer indices.
Examples
--------
>>> pm = BasePortMapper('/[a,b][0:2]')
>>> print pm.ports_to_inds('/b[0:2]')
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]).
Returns
-------
inds : numpy.ndarray of int
Integer indices of ports comprised by selector.
"""
return self.sel.select(self.portmap,
selector).dropna().astype(np.int_).values
def get_map(self, selector):
"""
Retrieve integer indices associated with selector.
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]).
Returns
-------
result : numpy.ndarray
Selected data.
"""
return np.asarray(self.sel.select(self.portmap, selector).dropna())
def set_map(self, selector, portmap):
"""
Set mapped integer index associated with selector.
Parameters
----------
selector : str, unicode, or sequence
Selector string (e.g., '/foo[0:2]') or sequence of token sequences
(e.g., [['foo', (0, 2)]]).
portmap : sequence of int
Integer indices to map to port identifiers.
"""
self.portmap[self.sel.get_index(self.portmap, selector)] = portmap
def equals(self, pm):
"""
Check whether this mapper is equivalent to another mapper.
Parameters
----------
pm : neurokernel.plsel.BasePortMapper
Mapper to compare to this mapper.
Returns
-------
result : bool
True if the specified port mapper contains the same port
identifiers as this instance and maps them to the same integer
values.
Notes
-----
The port identifiers and maps in the specified port mapper need not be
in the same order as this instance to be deemed equal.
"""
assert isinstance(pm, BasePortMapper)
pm0 = self.portmap.sort_values()
pm1 = pm.portmap.sort_values()
if np.array_equal(pm0.values, pm1.values) and \
pm0.index.equals(pm1.index):
return True
else:
return False
def __len__(self):
return self.portmap.size
def __repr__(self):
return 'Map:\n----\n'+self.portmap.__repr__()
