def __init__(self, cell, probes):
# (4.1) The base C++ class constructor must be called first, to ensure that
# all memory in the C++ class is initialized correctly.
arbor.recipe.__init__(self)
self.the_cell = cell
self.the_probes = probes
self.the_props = arbor.neuron_cable_properties()
def __init__(self):
super().__init__()
self.the_props = arbor.neuron_cable_properties()
self.trains = [
[0.8, 2, 2.1, 3],
[0.4, 2, 2.2, 3.1, 4.5],
[0.2, 2, 2.8, 3]]
def __init__(self, probes, Vms, length, radius, cm, rL, g, gj_g,
cv_policy_max_extent):
"""
probes -- list of probes
Vms -- membrane leak potentials of the two cells
length -- length of cable in μm
radius -- radius of cable in μm
cm -- membrane capacitance in F/m^2
rL -- axial resistivity in Ω·cm
g -- membrane conductivity in S/cm^2
gj_g -- gap junction conductivity in μS
cv_policy_max_extent -- maximum extent of control volume in μm
"""
# The base C++ class constructor must be called first, to ensure that
# all memory in the C++ class is initialized correctly.
arbor.recipe.__init__(self)
self.the_probes = probes
self.Vms = Vms
self.length = length
self.radius = radius
self.cm = cm
self.rL = rL
self.g = g
self.gj_g = gj_g
self.cv_policy_max_extent = cv_policy_max_extent
self.the_props = arbor.neuron_cable_properties()
self.the_cat = arbor.default_catalogue()
self.the_props.register(self.the_cat)
def __init__(self, ncells_per_chain, nchains):
arbor.recipe.__init__(self)
self.nchains = nchains
self.ncells_per_chain = ncells_per_chain
self.props = arbor.neuron_cable_properties()
self.cat = arbor.default_catalogue()
self.props.register(self.cat)
def __init__(self, dT, n_pairs):
arbor.recipe.__init__(self)
self.dT = dT
self.n_pairs = n_pairs
self.the_props = arbor.neuron_cable_properties()
self.the_cat = arbor.default_catalogue()
self.the_props.register(self.the_cat)
def __init__(self, n=10):
# The base C++ class constructor must be called first, to ensure that
# all memory in the C++ class is initialized correctly.
arbor.recipe.__init__(self)
self.ncells = n
self.props = arbor.neuron_cable_properties()
self.cat = arbor.default_catalogue()
self.props.register(self.cat)
def __init__(self):
A.recipe.__init__(self)
st = A.segment_tree()
i = st.append(A.mnpos, (0, 0, 0, 10), (1, 0, 0, 10), 1)
st.append(i, (1, 3, 0, 5), 1)
st.append(i, (1, -4, 0, 3), 1)
self.the_morphology = A.morphology(st)
self.the_cat = A.default_catalogue()
self.the_props = A.neuron_cable_properties()
self.the_props.register(self.the_cat)
def __init__(self, cell):
super().__init__()
self.the_cell = cell
self.vprobe_id = (0, 0)
self.iprobe_id = (0, 1)
self.cprobe_id = (0, 2)
self.the_props = arbor.neuron_cable_properties()
def __init__(self):
arb.recipe.__init__(self)
self.tree = arb.segment_tree()
self.tree.append(arb.mnpos, (0, 0, 0, 10), (1, 0, 0, 10), 1)
self.props = arb.neuron_cable_properties()
self.props.catalogue = arb.load_catalogue(cat)
d = arb.decor()
d.paint('(all)', 'dummy')
d.set_property(Vm=0.0)
self.cell = arb.cable_cell(self.tree, arb.label_dict(), d)
def __init__(self, cell):
super().__init__()
self.the_cell = cell
self.vprobe_id = (0, 0)
self.iprobe_id = (0, 1)
self.cprobe_id = (0, 2)
self.the_props = arbor.neuron_cable_properties()
self.the_cat = arbor.default_catalogue()
self.the_props.register(self.the_cat)
def __init__(self, nl_network, pop_indices_vs_gids, pops_vs_components, proj_weights, proj_delays):
# The base C++ class constructor must be called first, to ensure that
# all memory in the C++ class is initialized correctly.
arbor.recipe.__init__(self)
self.props = arbor.neuron_cable_properties()
self.cat = arbor.default_catalogue()
self.props.register(self.cat)
self.pop_indices_vs_gids = pop_indices_vs_gids
self.pops_vs_components = pops_vs_components
self.nl_network = nl_network
self.proj_weights = proj_weights
self.proj_delays = proj_delays
def __init__(self):
arb.recipe.__init__(self)
self.tree = arb.segment_tree()
self.tree.append(arb.mnpos, (0, 0, 0, 10), (1, 0, 0, 10), 1)
self.props = arb.neuron_cable_properties()
try:
self.cat = arb.default_catalogue()
self.props.register(self.cat)
except:
print("Catalogue not found. Are you running from build directory?")
raise
d = arb.decor()
d.paint('(all)', arb.density('pas'))
d.set_property(Vm=0.0)
self.cell = arb.cable_cell(self.tree, arb.label_dict(), d)
def __init__(self):
A.recipe.__init__(self)
st = A.segment_tree()
st.append(A.mnpos, (0, 0, 0, 10), (1, 0, 0, 10), 1)
dec = A.decor()
dec.place('(location 0 0.08)', A.synapse("expsyn"), "syn0")
dec.place('(location 0 0.09)', A.synapse("exp2syn"), "syn1")
dec.place('(location 0 0.1)', A.iclamp(20.), "iclamp")
dec.paint('(all)', A.density("hh"))
self.cell = A.cable_cell(st, A.label_dict(), dec)
self.props = A.neuron_cable_properties()
self.props.catalogue = A.default_catalogue()
def __init__(self):
A.recipe.__init__(self)
st = A.segment_tree()
st.append(A.mnpos, (0, 0, 0, 10), (1, 0, 0, 10), 1)
dec = A.decor()
dec.place('(location 0 0.08)', "expsyn")
dec.place('(location 0 0.09)', "exp2syn")
dec.paint('(all)', "hh")
self.cell = A.cable_cell(st, A.label_dict(), dec)
self.cat = A.default_catalogue()
self.props = A.neuron_cable_properties()
self.props.register(self.cat)
def __init__(self, probes,
Vm, length, radius, cm, rL, g,
stimulus_start, stimulus_duration, stimulus_amplitude,
cv_policy_max_extent):
"""
probes -- list of probes
Vm -- membrane leak potential
length -- length of cable in μm
radius -- radius of cable in μm
cm -- membrane capacitance in F/m^2
rL -- axial resistivity in Ω·cm
g -- membrane conductivity in S/cm^2
stimulus_start -- start of stimulus in ms
stimulus_duration -- duration of stimulus in ms
stimulus_amplitude -- amplitude of stimulus in nA
cv_policy_max_extent -- maximum extent of control volume in μm
"""
# (4.1) The base C++ class constructor must be called first, to ensure that
# all memory in the C++ class is initialized correctly.
arbor.recipe.__init__(self)
self.the_probes = probes
self.Vm = Vm
self.length = length
self.radius = radius
self.cm = cm
self.rL = rL
self.g = g
self.stimulus_start = stimulus_start
self.stimulus_duration = stimulus_duration
self.stimulus_amplitude = stimulus_amplitude
self.cv_policy_max_extent = cv_policy_max_extent
self.the_props = arbor.neuron_cable_properties()
self.the_cat = arbor.default_catalogue()
self.the_props.register(self.the_cat)
def __init__(self, n_cell):
A.recipe.__init__(self)
self.n_cell = n_cell
self.props = A.neuron_cable_properties()
def __init__(self, ncells):
# The base C++ class constructor must be called first, to ensure that
# all memory in the C++ class is initialized correctly.
arbor.recipe.__init__(self)
self.ncells = ncells
self.props = arbor.neuron_cable_properties()
def __init__(self, dT, n_pairs):
arbor.recipe.__init__(self)
self.dT = dT
self.n_pairs = n_pairs
self.the_props = arbor.neuron_cable_properties()
def __init__(self):
A.recipe.__init__(self)
self.props = A.neuron_cable_properties()
self.trains = [[0.8, 2, 2.1, 3], [0.4, 2, 2.2, 3.1, 4.5],
[0.2, 2, 2.8, 3]]
def __init__(self, n_cell):
A.recipe.__init__(self)
self.n_cell = n_cell
self.cat = A.default_catalogue()
self.props = A.neuron_cable_properties()
self.props.register(self.cat)
def __init__(self, ncells_per_chain, nchains):
arbor.recipe.__init__(self)
self.nchains = nchains
self.ncells_per_chain = ncells_per_chain
self.props = arbor.neuron_cable_properties()
