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__()