def test_add_objects(self):
network = Network(dt=1.0)
inpt = Input(100); network.add_layer(inpt, name='X')
lif = LIFNodes(50); network.add_layer(lif, name='Y')
assert inpt == network.layers['X']
assert lif == network.layers['Y']
conn = Connection(inpt, lif); network.add_connection(conn, source='X', target='Y')
assert conn == network.connections[('X', 'Y')]
monitor = Monitor(lif, state_vars=['s', 'v']); network.add_monitor(monitor, 'Y')
assert monitor == network.monitors['Y']
def test_rmax(self):
# Connection test
network = Network(dt=1.0)
network.add_layer(Input(n=100, traces=True, traces_additive=True),
name='input')
network.add_layer(SRM0Nodes(n=100), name='output')
network.add_connection(Connection(source=network.layers['input'],
target=network.layers['output'],
nu=1e-2,
update_rule=Rmax),
source='input',
target='output')
network.run(
inpts={'input': torch.bernoulli(torch.rand(250, 100)).byte()},
time=250,
reward=1.)
def BindsNET_cpu(n_neurons, time):
t0 = t()
torch.set_default_tensor_type('torch.FloatTensor')
t1 = t()
network = Network()
network.add_layer(Input(n=n_neurons), name='X')
network.add_layer(LIFNodes(n=n_neurons), name='Y')
network.add_connection(Connection(source=network.layers['X'],
target=network.layers['Y']),
source='X',
target='Y')
data = {'X': poisson(datum=torch.rand(n_neurons), time=time)}
network.run(inpts=data, time=time)
return t() - t0, t() - t1
def test_init(self):
network = Network()
for i, nodes in enumerate(
[
Input,
McCullochPitts,
IFNodes,
LIFNodes,
AdaptiveLIFNodes,
SRM0Nodes,
]
):
for n in [1, 100, 10000]:
layer = nodes(n)
network.add_layer(layer=layer, name=f"{i}_{n}")
assert layer.n == n
assert (layer.s.float() == torch.zeros(n)).all()
if nodes in [LIFNodes, AdaptiveLIFNodes]:
assert (layer.v == layer.rest * torch.ones(n)).all()
layer = nodes(n, traces=True, tc_trace=1e5)
network.add_layer(layer=layer, name=f"{i}_traces_{n}")
assert layer.n == n
assert layer.tc_trace == 1e5
assert (layer.s.float() == torch.zeros(n)).all()
assert (layer.x == torch.zeros(n)).all()
assert (layer.x == torch.zeros(n)).all()
if nodes in [LIFNodes, AdaptiveLIFNodes, SRM0Nodes]:
assert (layer.v == layer.rest * torch.ones(n)).all()
for nodes in [LIFNodes, AdaptiveLIFNodes]:
for n in [1, 100, 10000]:
layer = nodes(
n,
rest=0.0,
reset=-10.0,
thresh=10.0,
refrac=3,
tc_decay=1.5e3,
)
network.add_layer(layer=layer, name=f"{i}_params_{n}")
assert layer.rest == 0.0
assert layer.reset == -10.0
assert layer.thresh == 10.0
assert layer.refrac == 3
assert layer.tc_decay == 1.5e3
assert (layer.s.float() == torch.zeros(n)).all()
assert (layer.v == layer.rest * torch.ones(n)).all()
def BindsNET_cpu(n_neurons, time):
t0 = t()
torch.set_default_tensor_type("torch.FloatTensor")
t1 = t()
network = Network()
network.add_layer(Input(n=n_neurons), name="X")
network.add_layer(LIFNodes(n=n_neurons), name="Y")
network.add_connection(
Connection(source=network.layers["X"], target=network.layers["Y"]),
source="X",
target="Y",
)
data = {"X": poisson(datum=torch.rand(n_neurons), time=time)}
network.run(inputs=data, time=time)
return t() - t0, t() - t1
def test_empty(self):
for dt in [0.1, 1.0, 5.0]:
network = Network(dt=dt)
assert network.dt == dt
network.run(inpts={}, time=1000)
network.save('net.p')
_network = load_network('net.p')
assert _network.dt == dt
os.remove('net.p')
def __init__(
self,
environment: GymEnvironment,
method: str = 'first_spike',
dt: float = 1.0,
learning: bool = True,
reward_fn: AbstractReward = None,
allow_gpu: bool = True,
) -> None:
super().__init__(environment, allow_gpu)
self.method = method
self.network = Network(dt=dt, learning=learning, reward_fn=reward_fn)
if self.method == 'first_spike':
self.random_counter = 0
class TestMonitor:
"""
Testing Monitor object.
"""
network = Network()
inpt = Input(75)
network.add_layer(inpt, name="X")
_if = IFNodes(25)
network.add_layer(_if, name="Y")
conn = Connection(inpt, _if, w=torch.rand(inpt.n, _if.n))
network.add_connection(conn, source="X", target="Y")
inpt_mon = Monitor(inpt, state_vars=["s"])
network.add_monitor(inpt_mon, name="X")
_if_mon = Monitor(_if, state_vars=["s", "v"])
network.add_monitor(_if_mon, name="Y")
network.run(
inputs={"X": torch.bernoulli(torch.rand(100, inpt.n))}, time=100
)
assert inpt_mon.get("s").size() == torch.Size([100, 1, inpt.n])
assert _if_mon.get("s").size() == torch.Size([100, 1, _if.n])
assert _if_mon.get("v").size() == torch.Size([100, 1, _if.n])
del network.monitors["X"], network.monitors["Y"]
inpt_mon = Monitor(inpt, state_vars=["s"], time=500)
network.add_monitor(inpt_mon, name="X")
_if_mon = Monitor(_if, state_vars=["s", "v"], time=500)
network.add_monitor(_if_mon, name="Y")
network.run(
inputs={"X": torch.bernoulli(torch.rand(500, inpt.n))}, time=500
)
assert inpt_mon.get("s").size() == torch.Size([500, 1, inpt.n])
assert _if_mon.get("s").size() == torch.Size([500, 1, _if.n])
assert _if_mon.get("v").size() == torch.Size([500, 1, _if.n])
class TestMonitor:
"""
Testing Monitor object.
"""
network = Network()
inpt = Input(75)
network.add_layer(inpt, name='X')
_if = IFNodes(25)
network.add_layer(_if, name='Y')
conn = Connection(inpt, _if, w=torch.rand(inpt.n, _if.n))
network.add_connection(conn, source='X', target='Y')
inpt_mon = Monitor(inpt, state_vars=['s'])
network.add_monitor(inpt_mon, name='X')
_if_mon = Monitor(_if, state_vars=['s', 'v'])
network.add_monitor(_if_mon, name='Y')
network.run(inpts={'X': torch.bernoulli(torch.rand(100, inpt.n))},
time=100)
assert inpt_mon.get('s').size() == torch.Size([inpt.n, 100])
assert _if_mon.get('s').size() == torch.Size([_if.n, 100])
assert _if_mon.get('v').size() == torch.Size([_if.n, 100])
del network.monitors['X'], network.monitors['Y']
inpt_mon = Monitor(inpt, state_vars=['s'], time=500)
network.add_monitor(inpt_mon, name='X')
_if_mon = Monitor(_if, state_vars=['s', 'v'], time=500)
network.add_monitor(_if_mon, name='Y')
network.run(inpts={'X': torch.bernoulli(torch.rand(500, inpt.n))},
time=500)
assert inpt_mon.get('s').size() == torch.Size([inpt.n, 500])
assert _if_mon.get('s').size() == torch.Size([_if.n, 500])
assert _if_mon.get('v').size() == torch.Size([_if.n, 500])
class TestNetworkMonitor:
"""
Testing NetworkMonitor object.
"""
network = Network()
inpt = Input(25)
network.add_layer(inpt, name="X")
_if = IFNodes(75)
network.add_layer(_if, name="Y")
conn = Connection(inpt, _if, w=torch.rand(inpt.n, _if.n))
network.add_connection(conn, source="X", target="Y")
mon = NetworkMonitor(network, state_vars=["s", "v", "w"])
network.add_monitor(mon, name="monitor")
network.run(inputs={"X": torch.bernoulli(torch.rand(50, inpt.n))}, time=50)
recording = mon.get()
assert recording["X"]["s"].size() == torch.Size([50, 1, inpt.n])
assert recording["Y"]["s"].size() == torch.Size([50, 1, _if.n])
assert recording["Y"]["s"].size() == torch.Size([50, 1, _if.n])
del network.monitors["monitor"]
mon = NetworkMonitor(network, state_vars=["s", "v", "w"], time=50)
network.add_monitor(mon, name="monitor")
network.run(inputs={"X": torch.bernoulli(torch.rand(50, inpt.n))}, time=50)
recording = mon.get()
assert recording["X"]["s"].size() == torch.Size([50, 1, inpt.n])
assert recording["Y"]["s"].size() == torch.Size([50, 1, _if.n])
assert recording["Y"]["s"].size() == torch.Size([50, 1, _if.n])
class TestNetworkMonitor:
"""
Testing NetworkMonitor object.
"""
network = Network()
inpt = Input(25)
network.add_layer(inpt, name='X')
_if = IFNodes(75)
network.add_layer(_if, name='Y')
conn = Connection(inpt, _if, w=torch.rand(inpt.n, _if.n))
network.add_connection(conn, source='X', target='Y')
mon = NetworkMonitor(network, state_vars=['s', 'v', 'w'])
network.add_monitor(mon, name='monitor')
network.run(inpts={'X': torch.bernoulli(torch.rand(50, inpt.n))}, time=50)
recording = mon.get()
assert recording['X']['s'].size() == torch.Size([inpt.n, 50])
assert recording['Y']['s'].size() == torch.Size([_if.n, 50])
assert recording['Y']['s'].size() == torch.Size([_if.n, 50])
del network.monitors['monitor']
mon = NetworkMonitor(network, state_vars=['s', 'v', 'w'], time=50)
network.add_monitor(mon, name='monitor')
network.run(inpts={'X': torch.bernoulli(torch.rand(50, inpt.n))}, time=50)
recording = mon.get()
assert recording['X']['s'].size() == torch.Size([inpt.n, 50])
assert recording['Y']['s'].size() == torch.Size([_if.n, 50])
assert recording['Y']['s'].size() == torch.Size([_if.n, 50])
def test_empty(self):
for dt in [0.1, 1.0, 5.0]:
network = Network(dt=dt)
assert network.dt == dt
network.run(inpts={}, time=1000)
network.save('net.pt')
_network = load('net.pt')
assert _network.dt == dt
assert _network.learning
del _network
_network = load('net.pt', learning=True)
assert _network.dt == dt
assert _network.learning
del _network
_network = load('net.pt', learning=False)
assert _network.dt == dt
assert not _network.learning
del _network
os.remove('net.pt')
import torch
import matplotlib.pyplot as plt
from bindsnet.network import Network
from bindsnet.network.nodes import Input, LIFNodes, IO_Input
from bindsnet.network.topology import Connection
from bindsnet.network.monitors import Monitor
from bindsnet.analysis.plotting import plot_spikes, plot_voltages, plot_weights
from bindsnet.learning import MSTDP, PostPre, Hebbian
from bindsnet.utils import Error2IO_Current
from bindsnet.encoding import poisson
time = 1000
network = Network(dt=1)
# GR_Movement_layer = Input(n=100)
GR_Joint_layer = Input(n=500, traces=True)
PK = LIFNodes(n=8, traces=True)
PK_Anti = LIFNodes(n=8, traces=True)
IO = IO_Input(n=8)
IO_Anti = IO_Input(n=8)
DCN = LIFNodes(n=100, thresh=-57, traces=True)
DCN_Anti = LIFNodes(n=100, thresh=-57, trace=True)
# 输入motor相关
Parallelfiber = Connection(
source=GR_Joint_layer,
target=PK,
wmin=0,
wmax=10,
update_rule=Hebbian, # 此处可替换为自己写的LTP
nu=0.1,
w=0.1 + torch.zeros(GR_Joint_layer.n, PK.n))
def main(args):
if args.gpu:
torch.cuda.manual_seed_all(args.seed)
else:
torch.manual_seed(args.seed)
conv_size = int(
(28 - args.kernel_size + 2 * args.padding) / args.stride) + 1
# Build network.
network = Network()
input_layer = Input(n=784, shape=(1, 28, 28), traces=True)
conv_layer = DiehlAndCookNodes(
n=args.n_filters * conv_size * conv_size,
shape=(args.n_filters, conv_size, conv_size),
traces=True,
)
conv_conn = Conv2dConnection(
input_layer,
conv_layer,
kernel_size=args.kernel_size,
stride=args.stride,
update_rule=PostPre,
norm=0.4 * args.kernel_size**2,
nu=[0, args.lr],
reduction=max_without_indices,
wmax=1.0,
)
w = torch.zeros(args.n_filters, conv_size, conv_size, args.n_filters,
conv_size, conv_size)
for fltr1 in range(args.n_filters):
for fltr2 in range(args.n_filters):
if fltr1 != fltr2:
for i in range(conv_size):
for j in range(conv_size):
w[fltr1, i, j, fltr2, i, j] = -100.0
w = w.view(args.n_filters * conv_size * conv_size,
args.n_filters * conv_size * conv_size)
recurrent_conn = Connection(conv_layer, conv_layer, w=w)
network.add_layer(input_layer, name="X")
network.add_layer(conv_layer, name="Y")
network.add_connection(conv_conn, source="X", target="Y")
network.add_connection(recurrent_conn, source="Y", target="Y")
# Voltage recording for excitatory and inhibitory layers.
voltage_monitor = Monitor(network.layers["Y"], ["v"], time=args.time)
network.add_monitor(voltage_monitor, name="output_voltage")
if args.gpu:
network.to("cuda")
# Load MNIST data.
train_dataset = MNIST(
PoissonEncoder(time=args.time, dt=args.dt),
None,
os.path.join(ROOT_DIR, "data", "MNIST"),
download=True,
train=True,
transform=transforms.Compose([
transforms.ToTensor(),
transforms.Lambda(lambda x: x * args.intensity)
]),
)
spikes = {}
for layer in set(network.layers):
spikes[layer] = Monitor(network.layers[layer],
state_vars=["s"],
time=args.time)
network.add_monitor(spikes[layer], name="%s_spikes" % layer)
voltages = {}
for layer in set(network.layers) - {"X"}:
voltages[layer] = Monitor(network.layers[layer],
state_vars=["v"],
time=args.time)
network.add_monitor(voltages[layer], name="%s_voltages" % layer)
# Train the network.
print("Begin training.\n")
start = time()
weights_im = None
for epoch in range(args.n_epochs):
if epoch % args.progress_interval == 0:
print("Progress: %d / %d (%.4f seconds)" %
(epoch, args.n_epochs, time() - start))
start = time()
train_dataloader = DataLoader(
train_dataset,
batch_size=args.batch_size,
shuffle=True,
num_workers=4,
pin_memory=args.gpu,
)
for step, batch in enumerate(tqdm(train_dataloader)):
# Get next input sample.
inpts = {"X": batch["encoded_image"]}
if args.gpu:
inpts = {k: v.cuda() for k, v in inpts.items()}
# Run the network on the input.
network.run(inpts=inpts, time=args.time, input_time_dim=0)
# Decay learning rate.
network.connections["X", "Y"].nu[1] *= 0.99
# Optionally plot various simulation information.
if args.plot:
weights = conv_conn.w
weights_im = plot_conv2d_weights(weights, im=weights_im)
plt.pause(1e-8)
network.reset_() # Reset state variables.
print("Progress: %d / %d (%.4f seconds)\n" %
(args.n_epochs, args.n_epochs, time() - start))
print("Training complete.\n")
plot_spikes,
plot_voltages,
plot_weights,
)
from bindsnet.datasets import MNIST
from bindsnet.encoding import poisson_loader
from bindsnet.network import Network
from bindsnet.network.nodes import Input
# Build a simple two-layer, input-output network.
from bindsnet.network.monitors import Monitor
from bindsnet.network.nodes import LIFNodes
from bindsnet.network.topology import Connection
from bindsnet.utils import get_square_weights
network = Network(dt=1.0)
inpt = Input(784, shape=(28, 28))
network.add_layer(inpt, name="I")
output = LIFNodes(625, thresh=-52 + torch.randn(625))
network.add_layer(output, name="O")
C1 = Connection(source=inpt, target=output, w=torch.randn(inpt.n, output.n))
C2 = Connection(source=output,
target=output,
w=0.5 * torch.randn(output.n, output.n))
network.add_connection(C1, source="I", target="O")
network.add_connection(C2, source="O", target="O")
spikes = {}
for l in network.layers:
spikes[l] = Monitor(network.layers[l], ["s"], time=250)
seed = args.seed
n_neurons = args.n_neurons
dt = args.dt
plot_interval = args.plot_interval
render_interval = args.render_interval
print_interval = args.print_interval
gpu = args.gpu
if gpu:
torch.set_default_tensor_type('torch.cuda.FloatTensor')
torch.cuda.manual_seed_all(seed)
else:
torch.manual_seed(seed)
# Build network.
network = Network(dt=dt)
# Layers of neurons.
inpt = Input(shape=(110, 84), traces=True) # Input layer
exc = LIFNodes(n=n_neurons, refrac=0, traces=True) # Excitatory layer
readout = LIFNodes(n=14, refrac=0, traces=True) # Readout layer
layers = {'X' : inpt, 'E' : exc, 'R' : readout}
# Connections between layers.
# Input -> excitatory.
w = 0.01 * torch.rand(layers['X'].n, layers['E'].n)
input_exc_conn = Connection(source=layers['X'], target=layers['E'], w=0.01 * torch.rand(layers['X'].n, layers['E'].n),
wmax=0.02, norm=0.01 * layers['X'].n)
# Excitatory -> readout.
exc_readout_conn = Connection(source=layers['E'], target=layers['R'], w=0.01 * torch.rand(layers['E'].n, layers['R'].n),
tnn_thresh = 10
max_weight = num_timesteps
num_winners = 3 #tnn_layer_sz
time = num_timesteps
gpu = False
if gpu and torch.cuda.is_available():
torch.cuda.set_device(device_id)
# torch.set_default_tensor_type('torch.cuda.FloatTensor')
else:
torch.manual_seed(seed)
plot = True
# build network:
network = Network(dt=1)
input_layer = Input(n=input_size)
tnn_layer_1 = TemporalNeurons( \
n=tnn_layer_sz, \
timesteps=num_timesteps, \
threshold=tnn_thresh, \
num_winners=num_winners\
)
buffer_layer_1 = TemporalBufferNeurons(
n=tnn_layer_sz,
timesteps=num_timesteps,
)
C1 = Connection(source=input_layer,
train_dataloader = torch.utils.data.DataLoader(train_dataset,
batch_size=1,
shuffle=True,
num_workers=0)
# Grab the shape of a single sample (not including batch)
# So, TxCxHxW
sample_shape = train_dataset[0]["encoded_image"].shape
print(args.dataset, " has shape ", sample_shape)
conv_size = int((sample_shape[-1] - kernel_size + 2 * padding) / stride) + 1
per_class = int((n_filters * conv_size * conv_size) / 10)
# Build a small convolutional network
network = Network()
# Make sure to include the batch dimension but not time
input_layer = Input(shape=(1, *sample_shape[1:]), traces=True)
conv_layer = LIFNodes(
n=n_filters * conv_size * conv_size,
shape=(1, n_filters, conv_size, conv_size),
traces=True,
)
conv_conn = Conv2dConnection(
input_layer,
conv_layer,
kernel_size=kernel_size,
stride=stride,
def toLIF(network: Network):
new_network = Network(dt=1, learning=True)
input_layer = Input(n=network.X.n,
shape=network.X.shape,
traces=True,
tc_trace=network.X.tc_trace.item())
exc_layer = LIFNodes(
n=network.Ae.n,
traces=True,
rest=network.Ai.rest.item(),
reset=network.Ai.reset.item(),
thresh=network.Ai.thresh.item(),
refrac=network.Ai.refrac.item(),
tc_decay=network.Ai.tc_decay.item(),
)
inh_layer = LIFNodes(
n=network.Ai.n,
traces=False,
rest=network.Ai.rest.item(),
reset=network.Ai.reset.item(),
thresh=network.Ai.thresh.item(),
tc_decay=network.Ai.tc_decay.item(),
refrac=network.Ai.refrac.item(),
)
# Connections
w = network.X_to_Ae.w
input_exc_conn = Connection(
source=input_layer,
target=exc_layer,
w=w,
update_rule=PostPre,
nu=network.X_to_Ae.nu,
reduction=network.X_to_Ae.reduction,
wmin=network.X_to_Ae.wmin,
wmax=network.X_to_Ae.wmax,
norm=network.X_to_Ae.norm * 1,
)
w = network.Ae_to_Ai.w
exc_inh_conn = Connection(source=exc_layer,
target=inh_layer,
w=w,
wmin=network.Ae_to_Ai.wmin,
wmax=network.Ae_to_Ai.wmax)
w = network.Ai_to_Ae.w
inh_exc_conn = Connection(source=inh_layer,
target=exc_layer,
w=w,
wmin=network.Ai_to_Ae.wmin,
wmax=network.Ai_to_Ae.wmax)
# Add to network
new_network.add_layer(input_layer, name="X")
new_network.add_layer(exc_layer, name="Ae")
new_network.add_layer(inh_layer, name="Ai")
new_network.add_connection(input_exc_conn, source="X", target="Ae")
new_network.add_connection(exc_inh_conn, source="Ae", target="Ai")
new_network.add_connection(inh_exc_conn, source="Ai", target="Ae")
exc_voltage_monitor = Monitor(new_network.layers["Ae"], ["v"], time=500)
inh_voltage_monitor = Monitor(new_network.layers["Ai"], ["v"], time=500)
new_network.add_monitor(exc_voltage_monitor, name="exc_voltage")
new_network.add_monitor(inh_voltage_monitor, name="inh_voltage")
spikes = {}
for layer in set(network.layers):
spikes[layer] = Monitor(new_network.layers[layer],
state_vars=["s"],
time=time)
new_network.add_monitor(spikes[layer], name="%s_spikes" % layer)
return new_network
import torch
from bindsnet.network import Network
from bindsnet.pipeline import Pipeline
from bindsnet.learning import m_stdp_et
from bindsnet.encoding import bernoulli
from bindsnet.network.topology import Connection
from bindsnet.environment import GymEnvironment
from bindsnet.network.nodes import Input, LIFNodes
from bindsnet.pipeline.feedback import select_multinomial
# Build network.
network = Network(dt=1.0)
# Layers of neurons.
inpt = Input(n=78 * 84, shape=[78, 84], traces=True)
middle = LIFNodes(n=225, traces=True, thresh=-52.0 + torch.randn(225))
out = LIFNodes(n=60, refrac=0, traces=True, thresh=-40.0)
# Connections between layers.
inpt_middle = Connection(source=inpt, target=middle, wmax=1e-2)
middle_out = Connection(source=middle,
target=out,
wmax=0.5,
update_rule=m_stdp_et,
nu=2e-2,
norm=0.15 * middle.n)
# Add all layers and connections to the network.
network.add_layer(inpt, name='X')
network.add_layer(middle, name='Y')
network.add_layer(out, name='Z')
gpu = args.gpu
if gpu:
torch.set_default_tensor_type('torch.cuda.FloatTensor')
torch.cuda.manual_seed_all(seed)
else:
torch.manual_seed(seed)
if not train:
update_interval = n_test
conv_size = int((28 - kernel_size + 2 * padding) / stride) + 1
per_class = int((n_filters * conv_size * conv_size) / 10)
# Build network.
network = Network()
input_layer = Input(n=784, shape=(1, 1, 28, 28), traces=True)
conv_layer = DiehlAndCookNodes(n=n_filters * conv_size * conv_size,
shape=(1, n_filters, conv_size, conv_size),
traces=True)
conv_conn = Conv2dConnection(input_layer,
conv_layer,
kernel_size=kernel_size,
stride=stride,
update_rule=PostPre,
norm=0.4 * kernel_size**2,
nu=[1e-4, 1e-2],
wmax=1.0)
plot = args.plot
gpu = args.gpu
if gpu:
torch.cuda.manual_seed_all(seed)
else:
torch.manual_seed(seed)
if not train:
update_interval = n_test
conv_size = int((28 - kernel_size + 2 * padding) / stride) + 1
per_class = int((n_filters * conv_size * conv_size) / 10)
# Build network.
network = Network()
input_layer = Input(n=784, shape=(1, 28, 28), traces=True)
conv_layer = DiehlAndCookNodes(
n=n_filters * conv_size * conv_size,
shape=(n_filters, conv_size, conv_size),
traces=True,
)
conv_conn = Conv2dConnection(
input_layer,
conv_layer,
kernel_size=kernel_size,
stride=stride,
update_rule=PostPre,
norm=0.4 * kernel_size**2,
tnn_layer_sz = 20
rtnn_layer_sz = 50
num_timesteps = 16
tnn_thresh = 64
rtnn_thresh = 8
max_weight = 16
max_weight_rtnn = 16
num_winners_tnn = 1
num_winners_rtnn = rtnn_layer_sz//10
time = num_timesteps
torch.manual_seed(seed)
# build network:
network = Network(dt=1)
input_layer_a = Input(n=input_slice)
input_layer_b = Input(n=input_slice)
tnn_layer_1a = TemporalNeurons(
n=tnn_layer_sz,
timesteps=num_timesteps,
threshold=tnn_thresh,
num_winners=num_winners_tnn
)
tnn_layer_1b = TemporalNeurons(
n=tnn_layer_sz,
timesteps=num_timesteps,
threshold=tnn_thresh,
num_winners=num_winners_tnn
)
def ann_to_snn(ann: Union[nn.Module, str],
input_shape: Sequence[int],
data: Optional[torch.Tensor] = None,
percentile: float = 99.9,
node_type: Optional[nodes.Nodes] = SubtractiveResetIFNodes,
**kwargs) -> Network:
# language=rst
"""
Converts an artificial neural network (ANN) written as a ``torch.nn.Module`` into a near-equivalent spiking neural
network.
:param ann: Artificial neural network implemented in PyTorch. Accepts either ``torch.nn.Module`` or path to network
saved using ``torch.save()``.
:param input_shape: Shape of input data.
:param data: Data to use to perform data-based weight normalization of shape ``[n_examples, ...]``.
:param percentile: Percentile (in ``[0, 100]``) of activations to scale by in data-based normalization scheme.
:return: Spiking neural network implemented in PyTorch.
"""
if isinstance(ann, str):
ann = torch.load(ann)
else:
ann = deepcopy(ann)
assert isinstance(ann, nn.Module)
if data is None:
import warnings
warnings.warn("Data is None. Weights will not be scaled.",
RuntimeWarning)
else:
ann = data_based_normalization(ann=ann,
data=data.detach(),
percentile=percentile)
snn = Network()
input_layer = nodes.RealInput(shape=input_shape)
snn.add_layer(input_layer, name="Input")
children = []
for c in ann.children():
if isinstance(c, nn.Sequential):
for c2 in list(c.children()):
children.append(c2)
else:
children.append(c)
i = 0
prev = input_layer
while i < len(children) - 1:
current, nxt = children[i:i + 2]
layer, connection = _ann_to_snn_helper(prev, current, node_type,
**kwargs)
i += 1
if layer is None or connection is None:
continue
snn.add_layer(layer, name=str(i))
snn.add_connection(connection, source=str(i - 1), target=str(i))
prev = layer
current = children[-1]
layer, connection = _ann_to_snn_helper(prev, current, node_type, **kwargs)
i += 1
if layer is not None or connection is not None:
snn.add_layer(layer, name=str(i))
snn.add_connection(connection, source=str(i - 1), target=str(i))
return snn
from bindsnet.network import Network
from bindsnet.pipeline import EnvironmentPipeline
from bindsnet.learning import MSTDP
from bindsnet.encoding import bernoulli
from bindsnet.network.topology import Connection
from bindsnet.environment import GymEnvironment
from bindsnet.network.nodes import Input, LIFNodes
from bindsnet.pipeline.action import select_softmax
# Build network.
network = Network(dt=1.0)
# Layers of neurons.
inpt = Input(n=80 * 80, shape=[80, 80], traces=True)
middle = LIFNodes(n=100, traces=True)
out = LIFNodes(n=4, refrac=0, traces=True)
# Connections between layers.
inpt_middle = Connection(source=inpt, target=middle, wmin=0, wmax=1e-1)
middle_out = Connection(
source=middle,
target=out,
wmin=0,
wmax=1,
update_rule=MSTDP,
nu=1e-1,
norm=0.5 * middle.n,
)
# Add all layers and connections to the network.
network.add_layer(inpt, name="Input Layer")
def test_add_objects(self):
network = Network(dt=1.0, learning=False)
inpt = Input(100)
network.add_layer(inpt, name='X')
lif = LIFNodes(50)
network.add_layer(lif, name='Y')
assert inpt == network.layers['X']
assert lif == network.layers['Y']
conn = Connection(inpt, lif)
network.add_connection(conn, source='X', target='Y')
assert conn == network.connections[('X', 'Y')]
monitor = Monitor(lif, state_vars=['s', 'v'])
network.add_monitor(monitor, 'Y')
assert monitor == network.monitors['Y']
network.save('net.pt')
_network = load('net.pt', learning=True)
assert _network.learning
assert 'X' in _network.layers
assert 'Y' in _network.layers
assert ('X', 'Y') in _network.connections
assert 'Y' in _network.monitors
del _network
os.remove('net.pt')
def main(seed=0,
n_train=60000,
n_test=10000,
kernel_size=(16, ),
stride=(4, ),
n_filters=25,
padding=0,
inhib=100,
time=25,
lr=1e-3,
lr_decay=0.99,
dt=1,
intensity=1,
progress_interval=10,
update_interval=250,
plot=False,
train=True,
gpu=False):
assert n_train % update_interval == 0 and n_test % update_interval == 0, \
'No. examples must be divisible by update_interval'
params = [
seed, n_train, kernel_size, stride, n_filters, padding, inhib, time,
lr, lr_decay, dt, intensity, update_interval
]
model_name = '_'.join([str(x) for x in params])
if not train:
test_params = [
seed, n_train, n_test, kernel_size, stride, n_filters, padding,
inhib, time, lr, lr_decay, dt, intensity, update_interval
]
np.random.seed(seed)
if gpu:
torch.set_default_tensor_type('torch.cuda.FloatTensor')
torch.cuda.manual_seed_all(seed)
else:
torch.manual_seed(seed)
n_examples = n_train if train else n_test
input_shape = [20, 20]
if kernel_size == input_shape:
conv_size = [1, 1]
else:
conv_size = (int((input_shape[0] - kernel_size[0]) / stride[0]) + 1,
int((input_shape[1] - kernel_size[1]) / stride[1]) + 1)
n_classes = 10
n_neurons = n_filters * np.prod(conv_size)
total_kernel_size = int(np.prod(kernel_size))
total_conv_size = int(np.prod(conv_size))
# Build network.
if train:
network = Network()
input_layer = Input(n=400, shape=(1, 1, 20, 20), traces=True)
conv_layer = DiehlAndCookNodes(n=n_filters * total_conv_size,
shape=(1, n_filters, *conv_size),
thresh=-64.0,
traces=True,
theta_plus=0.05 * (kernel_size[0] / 20),
refrac=0)
conv_layer2 = LIFNodes(n=n_filters * total_conv_size,
shape=(1, n_filters, *conv_size),
refrac=0)
conv_conn = Conv2dConnection(input_layer,
conv_layer,
kernel_size=kernel_size,
stride=stride,
update_rule=WeightDependentPostPre,
norm=0.05 * total_kernel_size,
nu=[0, lr],
wmin=0,
wmax=0.25)
conv_conn2 = Conv2dConnection(input_layer,
conv_layer2,
w=conv_conn.w,
kernel_size=kernel_size,
stride=stride,
update_rule=None,
wmax=0.25)
w = -inhib * torch.ones(n_filters, conv_size[0], conv_size[1],
n_filters, conv_size[0], conv_size[1])
for f in range(n_filters):
for f2 in range(n_filters):
if f != f2:
w[f, :, :f2, :, :] = 0
w = w.view(n_filters * conv_size[0] * conv_size[1],
n_filters * conv_size[0] * conv_size[1])
recurrent_conn = Connection(conv_layer, conv_layer, w=w)
network.add_layer(input_layer, name='X')
network.add_layer(conv_layer, name='Y')
network.add_layer(conv_layer2, name='Y_')
network.add_connection(conv_conn, source='X', target='Y')
network.add_connection(conv_conn2, source='X', target='Y_')
network.add_connection(recurrent_conn, source='Y', target='Y')
# Voltage recording for excitatory and inhibitory layers.
voltage_monitor = Monitor(network.layers['Y'], ['v'], time=time)
network.add_monitor(voltage_monitor, name='output_voltage')
else:
network = load_network(os.path.join(params_path, model_name + '.pt'))
network.connections['X', 'Y'].update_rule = NoOp(
connection=network.connections['X', 'Y'],
nu=network.connections['X', 'Y'].nu)
network.layers['Y'].theta_decay = 0
network.layers['Y'].theta_plus = 0
# Load MNIST data.
dataset = MNIST(data_path, download=True)
if train:
images, labels = dataset.get_train()
else:
images, labels = dataset.get_test()
images *= intensity
images = images[:, 4:-4, 4:-4].contiguous()
# Record spikes during the simulation.
spike_record = torch.zeros(update_interval, time, n_neurons)
full_spike_record = torch.zeros(n_examples, n_neurons)
# Neuron assignments and spike proportions.
if train:
logreg_model = LogisticRegression(warm_start=True,
n_jobs=-1,
solver='lbfgs',
max_iter=1000,
multi_class='multinomial')
logreg_model.coef_ = np.zeros([n_classes, n_neurons])
logreg_model.intercept_ = np.zeros(n_classes)
logreg_model.classes_ = np.arange(n_classes)
else:
path = os.path.join(params_path,
'_'.join(['auxiliary', model_name]) + '.pt')
logreg_coef, logreg_intercept = torch.load(open(path, 'rb'))
logreg_model = LogisticRegression(warm_start=True,
n_jobs=-1,
solver='lbfgs',
max_iter=1000,
multi_class='multinomial')
logreg_model.coef_ = logreg_coef
logreg_model.intercept_ = logreg_intercept
logreg_model.classes_ = np.arange(n_classes)
# Sequence of accuracy estimates.
curves = {'logreg': []}
predictions = {scheme: torch.Tensor().long() for scheme in curves.keys()}
if train:
best_accuracy = 0
spikes = {}
for layer in set(network.layers):
spikes[layer] = Monitor(network.layers[layer],
state_vars=['s'],
time=time)
network.add_monitor(spikes[layer], name='%s_spikes' % layer)
# Train the network.
if train:
print('\nBegin training.\n')
else:
print('\nBegin test.\n')
inpt_ims = None
inpt_axes = None
spike_ims = None
spike_axes = None
weights_im = None
plot_update_interval = 100
start = t()
for i in range(n_examples):
if i % progress_interval == 0:
print('Progress: %d / %d (%.4f seconds)' %
(i, n_examples, t() - start))
start = t()
if i % update_interval == 0 and i > 0:
if train:
network.connections['X', 'Y'].update_rule.nu[1] *= lr_decay
if i % len(labels) == 0:
current_labels = labels[-update_interval:]
current_record = full_spike_record[-update_interval:]
else:
current_labels = labels[i % len(labels) - update_interval:i %
len(labels)]
current_record = full_spike_record[i % len(labels) -
update_interval:i %
len(labels)]
# Update and print accuracy evaluations.
curves, preds = update_curves(curves,
current_labels,
n_classes,
full_spike_record=current_record,
logreg=logreg_model)
print_results(curves)
for scheme in preds:
predictions[scheme] = torch.cat(
[predictions[scheme], preds[scheme]], -1)
# Save accuracy curves to disk.
to_write = ['train'] + params if train else ['test'] + params
f = '_'.join([str(x) for x in to_write]) + '.pt'
torch.save((curves, update_interval, n_examples),
open(os.path.join(curves_path, f), 'wb'))
if train:
if any([x[-1] > best_accuracy for x in curves.values()]):
print(
'New best accuracy! Saving network parameters to disk.'
)
# Save network to disk.
network.save(os.path.join(params_path, model_name + '.pt'))
path = os.path.join(
params_path,
'_'.join(['auxiliary', model_name]) + '.pt')
torch.save((logreg_model.coef_, logreg_model.intercept_),
open(path, 'wb'))
best_accuracy = max([x[-1] for x in curves.values()])
# Refit logistic regression model.
logreg_model = logreg_fit(full_spike_record[:i], labels[:i],
logreg_model)
print()
# Get next input sample.
image = images[i % len(images)]
sample = bernoulli(datum=image, time=time, dt=dt,
max_prob=1).unsqueeze(1).unsqueeze(1)
inpts = {'X': sample}
# Run the network on the input.
network.run(inpts=inpts, time=time)
network.connections['X', 'Y_'].w = network.connections['X', 'Y'].w
# Add to spikes recording.
spike_record[i % update_interval] = spikes['Y_'].get('s').view(
time, -1)
full_spike_record[i] = spikes['Y_'].get('s').view(time, -1).sum(0)
# Optionally plot various simulation information.
if plot and i % plot_update_interval == 0:
_input = inpts['X'].view(time, 400).sum(0).view(20, 20)
w = network.connections['X', 'Y'].w
_spikes = {
'X': spikes['X'].get('s').view(400, time),
'Y': spikes['Y'].get('s').view(n_filters * total_conv_size,
time),
'Y_': spikes['Y_'].get('s').view(n_filters * total_conv_size,
time)
}
inpt_axes, inpt_ims = plot_input(image.view(20, 20),
_input,
label=labels[i % len(labels)],
ims=inpt_ims,
axes=inpt_axes)
spike_ims, spike_axes = plot_spikes(spikes=_spikes,
ims=spike_ims,
axes=spike_axes)
weights_im = plot_conv2d_weights(
w, im=weights_im, wmax=network.connections['X', 'Y'].wmax)
plt.pause(1e-2)
network.reset_() # Reset state variables.
print(f'Progress: {n_examples} / {n_examples} ({t() - start:.4f} seconds)')
i += 1
if i % len(labels) == 0:
current_labels = labels[-update_interval:]
current_record = full_spike_record[-update_interval:]
else:
current_labels = labels[i % len(labels) - update_interval:i %
len(labels)]
current_record = full_spike_record[i % len(labels) -
update_interval:i % len(labels)]
# Update and print accuracy evaluations.
curves, preds = update_curves(curves,
current_labels,
n_classes,
full_spike_record=current_record,
logreg=logreg_model)
print_results(curves)
for scheme in preds:
predictions[scheme] = torch.cat([predictions[scheme], preds[scheme]],
-1)
if train:
if any([x[-1] > best_accuracy for x in curves.values()]):
print('New best accuracy! Saving network parameters to disk.')
# Save network to disk.
network.save(os.path.join(params_path, model_name + '.pt'))
path = os.path.join(params_path,
'_'.join(['auxiliary', model_name]) + '.pt')
torch.save((logreg_model.coef_, logreg_model.intercept_),
open(path, 'wb'))
if train:
print('\nTraining complete.\n')
else:
print('\nTest complete.\n')
print('Average accuracies:\n')
for scheme in curves.keys():
print('\t%s: %.2f' % (scheme, float(np.mean(curves[scheme]))))
# Save accuracy curves to disk.
to_write = ['train'] + params if train else ['test'] + params
to_write = [str(x) for x in to_write]
f = '_'.join(to_write) + '.pt'
torch.save((curves, update_interval, n_examples),
open(os.path.join(curves_path, f), 'wb'))
# Save results to disk.
results = [np.mean(curves['logreg']), np.std(curves['logreg'])]
to_write = params + results if train else test_params + results
to_write = [str(x) for x in to_write]
name = 'train.csv' if train else 'test.csv'
if not os.path.isfile(os.path.join(results_path, name)):
with open(os.path.join(results_path, name), 'w') as f:
if train:
columns = [
'seed', 'n_train', 'kernel_size', 'stride', 'n_filters',
'padding', 'inhib', 'time', 'lr', 'lr_decay', 'dt',
'intensity', 'update_interval', 'mean_logreg', 'std_logreg'
]
header = ','.join(columns) + '\n'
f.write(header)
else:
columns = [
'seed', 'n_train', 'n_test', 'kernel_size', 'stride',
'n_filters', 'padding', 'inhib', 'time', 'lr', 'lr_decay',
'dt', 'intensity', 'update_interval', 'mean_logreg',
'std_logreg'
]
header = ','.join(columns) + '\n'
f.write(header)
with open(os.path.join(results_path, name), 'a') as f:
f.write(','.join(to_write) + '\n')
if labels.numel() > n_examples:
labels = labels[:n_examples]
else:
while labels.numel() < n_examples:
if 2 * labels.numel() > n_examples:
labels = torch.cat(
[labels, labels[:n_examples - labels.numel()]])
else:
labels = torch.cat([labels, labels])
# Compute confusion matrices and save them to disk.
confusions = {}
for scheme in predictions:
confusions[scheme] = confusion_matrix(labels, predictions[scheme])
to_write = ['train'] + params if train else ['test'] + test_params
f = '_'.join([str(x) for x in to_write]) + '.pt'
torch.save(confusions, os.path.join(confusion_path, f))
def Translate_Into_Networks(input_N, Shape, Output_N, Weight):
network_list = []
path = "gene/"
file_list = os.listdir(path)
gene_file_check = [file for file in file_list if file.endswith(".txt")]
if len(gene_file_check) == 0:
import startup
Gene_List = Genetic.Read_Gene()
for i in range(len(Gene_List)):
network = Network()
Decoded_List = []
Decoded_DNA_List = []
for j in range(len(Gene_List[i])):
Decoded_Gene = Gene_List[i][j].split('-')
if (Decoded_Gene[3] == 'F'):
pass
else:
if Decoded_Gene[1] == '~':
Decoded_List.append(
[int(Decoded_Gene[0]),
int(Decoded_Gene[2]), 0])
elif Decoded_Gene[1] == '!':
Decoded_List.append(
[int(Decoded_Gene[0]),
int(Decoded_Gene[2]), 1])
elif Decoded_Gene[1] == '@':
Decoded_List.append(
[int(Decoded_Gene[0]),
int(Decoded_Gene[2]), 2])
elif Decoded_Gene[1] == '#':
Decoded_List.append(
[int(Decoded_Gene[0]),
int(Decoded_Gene[2]), 3])
elif Decoded_Gene[1] == '$':
Decoded_List.append(
[int(Decoded_Gene[0]),
int(Decoded_Gene[2]), 4])
else:
print("THE GENOTYPE VALUE IS UNVALID")
raise ValueError
Decoded_DNA_List.append(Decoded_List)
Decoded_RNA_List: list = Decoded_DNA_List.copy()
for decoded_dna_idx, decoded_dna in enumerate(Decoded_DNA_List):
Gene_NUM = len(decoded_dna)
for k in range(Gene_NUM):
a = Decoded_DNA_List[decoded_dna_idx][k]
for l in range(k, Gene_NUM):
b = Decoded_DNA_List[decoded_dna_idx][l]
if a and b == 1:
if decoded_dna[k][2] == 0:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[l])
elif decoded_dna[k][2] == 1:
if decoded_dna[l][2] < 1:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[k])
else:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[l])
elif decoded_dna[k][2] == 2:
if decoded_dna[l][2] < 2:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[k])
else:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[l])
elif decoded_dna[k][2] == 3:
if decoded_dna[l][2] < 3:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[k])
else:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[l])
elif decoded_dna[k][2] == 4:
if decoded_dna[l][2] >= 4:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[l])
else:
Decoded_RNA_List[decoded_dna_idx].remove(
decoded_dna[k])
else:
pass
else:
pass
for Decoded_RNA in Decoded_RNA_List:
layer_list = {}
for m in range(len(Decoded_RNA)):
for n in range(m, len(Decoded_RNA)):
if Decoded_RNA[m][1] == Decoded_RNA[n][0]:
if Decoded_RNA[n][2] == 0:
layer_list[Decoded_RNA[m][0]] = nodes.IFNodes(
n=1, traces=True)
elif Decoded_RNA[n][2] == 1:
layer_list[Decoded_RNA[m][0]] = nodes.LIFNodes(
n=1, traces=True)
elif Decoded_RNA[n][2] == 2:
layer_list[Decoded_RNA[m]
[0]] = nodes.McCullochPitts(n=1,
traces=True)
elif Decoded_RNA[n][2] == 3:
layer_list[Decoded_RNA[m]
[0]] = nodes.IzhikevichNodes(
n=1, traces=True)
elif Decoded_RNA[n][2] == 4:
layer_list[Decoded_RNA[m][0]] = nodes.SRM0Nodes(
n=1, traces=True)
else:
print("UNVALID GENO_NEURON CODE")
raise ValueError
elif n == len(Decoded_List) - 1:
layer_list[Decoded_RNA[m][1]] = nodes.LIFNodes(n=1)
for l in range(len(Decoded_RNA)):
if not Decoded_RNA[l][0] in layer_list:
if Decoded_RNA[l][2] == 0:
layer_list[Decoded_RNA[l][0]] = nodes.IFNodes(
n=1, traces=True)
elif Decoded_RNA[l][2] == 1:
layer_list[Decoded_RNA[l][0]] = nodes.LIFNodes(
n=1, traces=True)
elif Decoded_RNA[l][2] == 2:
layer_list[Decoded_RNA[l][0]] = nodes.McCullochPitts(
n=1, traces=True)
elif Decoded_RNA[l][2] == 3:
layer_list[Decoded_RNA[l][0]] = nodes.IzhikevichNodes(
n=1, traces=True)
elif Decoded_RNA[l][2] == 4:
layer_list[Decoded_RNA[l][0]] = nodes.SRM0Nodes(
n=1, traces=True)
Input_Layer = nodes.Input(n=input_N, shape=Shape, traces=True)
out = nodes.LIFNodes(n=Output_N, refrac=0, traces=True)
network.add_layer(layer=Input_Layer, name="Input Layer")
for key_l in list(layer_list.keys()):
network.add_layer(layer=layer_list[key_l], name=str(key_l))
network.add_layer(layer=out, name="Output Layer")
if len(layer_list.keys()) == 0:
layer = nodes.LIFNodes(n=1, traces=True)
network.add_layer(layer=layer, name="mid layer")
inpt_connection = Connection(source=Input_Layer,
target=layer,
w=Weight * torch.ones(input_N))
opt_connection = Connection(source=layer,
target=out,
w=Weight * torch.ones(1))
network.add_connection(inpt_connection,
source="Input_Layer",
target="mid layer")
network.add_connection(opt_connection,
source="mid layer",
target="Output Layer")
else:
for key_ic in list(layer_list.keys()):
inpt_connection = Connection(source=Input_Layer,
target=layer_list[key_ic],
w=Weight * torch.ones(input_N))
network.add_connection(inpt_connection,
source="Input_Layer",
target=str(key_ic))
for key_op in list(layer_list.keys()):
output_connection = Connection(source=layer_list[key_op],
target=out,
w=Weight * torch.ones(1),
update_rule=MSTDP)
network.add_connection(output_connection,
source=str(key_op),
target="Output Layer")
for generating_protein in Decoded_RNA:
mid_connection = Connection(
source=layer_list[generating_protein[0]],
target=layer_list[generating_protein[1]],
w=Weight * torch.ones(1),
update_rule=MSTDP)
network.add_connection(mid_connection,
source=str(generating_protein[0]),
target=str(generating_protein[1]))
network_list.append(network)
network.save('Network/' + str(i) + '.pt')
return network_list
import torch
from bindsnet.network import Network
from bindsnet.pipeline import EnvironmentPipeline
from bindsnet.learning import MSTDPET
from bindsnet.encoding import BernoulliEncoder
from bindsnet.network.topology import Connection
from bindsnet.environment import GymEnvironment
from bindsnet.network.nodes import Input, LIFNodes
from bindsnet.pipeline.action import select_multinomial
# Build network.
network = Network(dt=1.0)
# Layers of neurons.
inpt = Input(n=78 * 84, shape=[1, 1, 78, 84], traces=True)
middle = LIFNodes(n=225, traces=True, thresh=-52.0 + torch.randn(225))
out = LIFNodes(n=60, refrac=0, traces=True, thresh=-40.0)
# Connections between layers.
inpt_middle = Connection(source=inpt, target=middle, wmax=1e-2)
middle_out = Connection(
source=middle,
target=out,
wmax=0.5,
update_rule=MSTDPET,
nu=2e-2,
norm=0.15 * middle.n,
)
# Add all layers and connections to the network.
seed = args.seed
n_neurons = args.n_neurons
dt = args.dt
plot_interval = args.plot_interval
render_interval = args.render_interval
print_interval = args.print_interval
gpu = args.gpu
if gpu:
torch.set_default_tensor_type("torch.cuda.FloatTensor")
torch.cuda.manual_seed_all(seed)
else:
torch.manual_seed(seed)
# Build network.
network = Network(dt=dt)
# Layers of neurons.
inpt = Input(shape=(1, 1, 1, 80, 80), traces=True) # Input layer
exc = LIFNodes(n=n_neurons, refrac=0, traces=True) # Excitatory layer
readout = LIFNodes(n=4, refrac=0, traces=True) # Readout layer
layers = {"X": inpt, "E": exc, "R": readout}
# Connections between layers.
# Input -> excitatory.
w = 0.01 * torch.rand(layers["X"].n, layers["E"].n)
input_exc_conn = Connection(
source=layers["X"],
target=layers["E"],
w=0.01 * torch.rand(layers["X"].n, layers["E"].n),
wmax=0.02,