def spatial_2d_padding(x, padding=(1, 1), dim_ordering='th'):
'''Pad the 2nd and 3rd dimensions of a 4D tensor
with "padding[0]" and "padding[1]" (resp.) zeros left and right.
'''
input_shape = x.shape
if dim_ordering == 'th':
output_shape = (input_shape[0],
input_shape[1],
input_shape[2] + 2 * padding[0],
input_shape[3] + 2 * padding[1])
output = T.zeros(output_shape)
indices = (slice(None),
slice(None),
slice(padding[0], input_shape[2] + padding[0]),
slice(padding[1], input_shape[3] + padding[1]))
elif dim_ordering == 'tf':
output_shape = (input_shape[0],
input_shape[1] + 2 * padding[0],
input_shape[2] + 2 * padding[1],
input_shape[3])
output = T.zeros(output_shape)
indices = (slice(None),
slice(padding[0], input_shape[1] + padding[0]),
slice(padding[1], input_shape[2] + padding[1]),
slice(None))
else:
raise Exception('Invalid dim_ordering: ' + dim_ordering)
return T.set_subtensor(output[indices], x)
def initial_states(self, batch_size, *args, **kwargs):
r"""Return initial states for an application call.
Default implementation assumes that the recurrent application
method is called `apply`. It fetches the state names
from `apply.states` and a returns a zero matrix for each of them.
:class:`SimpleRecurrent`, :class:`LSTM` and :class:`GatedRecurrent`
override this method with trainable initial states initialized
with zeros.
Parameters
----------
batch_size : int
The batch size.
\*args
The positional arguments of the application call.
\*\*kwargs
The keyword arguments of the application call.
"""
result = []
for state in self.apply.states:
dim = self.get_dim(state)
if dim == 0:
result.append(tensor.zeros((batch_size,)))
else:
result.append(tensor.zeros((batch_size, dim)))
return result
def initial_glimpses(self, batch_size, attended):
return ([tensor.zeros((batch_size, self.attended_dim))]
+ 2 * [tensor.concatenate([
tensor.ones((batch_size, 1)),
tensor.zeros((batch_size, attended.shape[0] - 1))],
axis=1)]
+ [tensor.zeros((batch_size,), dtype='int64')])
def lllistool(i, inp, func):
if func == LSTM:
NUMS[i+1] *= 4
sdim = DIMS[i]
if func == SimpleRecurrent or func == LSTM:
sdim = DIMS[i] + DIMS[i+1]
l = Linear(input_dim=DIMS[i], output_dim=DIMS[i+1] * NUMS[i+1],
weights_init=IsotropicGaussian(std=sdim**(-0.5)),
biases_init=IsotropicGaussian(std=sdim**(-0.5)),
name='Lin{}'.format(i))
l.initialize()
if func == SimpleRecurrent:
gong = func(dim=DIMS[i+1], activation=Rectifier(), weights_init=IsotropicGaussian(std=sdim**(-0.5)))
gong.initialize()
ret = gong.apply(l.apply(inp))
elif func == LSTM:
gong = func(dim=DIMS[i+1], activation=Tanh(), weights_init=IsotropicGaussian(std=sdim**(-0.5)))
gong.initialize()
print(inp)
ret, _ = gong.apply(
l.apply(inp),
T.zeros((inp.shape[1], DIMS[i+1])),
T.zeros((inp.shape[1], DIMS[i+1])),
)
elif func == SequenceGenerator:
gong = func(
readout=None,
transition=SimpleRecurrent(dim=100, activation=Rectifier(), weights_init=IsotropicGaussian(std=0.1)))
ret = None
elif func == None:
ret = l.apply(inp)
else:
gong = func()
ret = gong.apply(l.apply(inp))
return ret
def pad(inp, padding):
if all([padval == 0 for padval in pyk.flatten(padding)]):
return inp
if inp.ndim == 4:
# Make a zero tensor of the right shape
zt = T.zeros(shape=(inp.shape[0], inp.shape[1], inp.shape[2]+sum(padding[0]), inp.shape[3]+sum(padding[1])))
# Compute assignment slice
[[ystart, ystop], [xstart, xstop]] = [[padval[0], (-padval[1] if padval[1] != 0 else None)]
for padval in padding]
# Assign subtensor
padded = T.set_subtensor(zt[:, :, ystart:ystop, xstart:xstop], inp)
return padded
elif inp.ndim == 5:
# Make a zero tensor of the right shape
zt = T.zeros(shape=(inp.shape[0], inp.shape[1]+sum(padding[2]), inp.shape[2], inp.shape[3]+sum(padding[0]),
inp.shape[4]+sum(padding[1])))
# Compute assignment slice
[[ystart, ystop], [xstart, xstop], [zstart, zstop]] = [[padval[0], (-padval[1] if padval[1] != 0 else None)]
for padval in padding]
# Assign subtensor
padded = T.set_subtensor(zt[:, zstart:zstop, :, ystart:ystop, xstart:xstop], inp)
return padded
else:
raise NotImplementedError("Padding is only implemented for 4 and 5 dimensional tensors.")
def plotUpdate(self,updates):
'''
>>>get update info of each layer
>>>type updates: dict
>>>para updates: update dictionary
'''
maxdict=T.zeros(shape=(self.deep*2+1,))
mindict=T.zeros(shape=(self.deep*2+1,))
meandict=T.zeros(shape=(self.deep*2+1,))
for i in xrange(self.deep):
updw=updates[self.layers[i].w]-self.layers[i].w
maxdict=T.set_subtensor(maxdict[2*i],T.max(updw))
mindict=T.set_subtensor(mindict[2*i],T.min(updw))
meandict=T.set_subtensor(meandict[2*i],T.mean(updw))
updb=updates[self.layers[i].b]-self.layers[i].b
maxdict=T.set_subtensor(maxdict[2*i+1],T.max(updb))
mindict=T.set_subtensor(mindict[2*i+1],T.min(updb))
meandict=T.set_subtensor(meandict[2*i+1],T.mean(updb))
updw=updates[self.classifier.w]-self.classifier.w
maxdict=T.set_subtensor(maxdict[self.deep*2],T.max(updw))
mindict=T.set_subtensor(mindict[self.deep*2],T.min(updw))
meandict=T.set_subtensor(meandict[self.deep*2],T.mean(updw))
return [maxdict,mindict,meandict]
def __init__(self, rng, input, mask, n_in, n_h):
# Init params
self.W_i = theano.shared(gauss_weight(rng, n_in, n_h), 'W_i', borrow=True)
self.W_f = theano.shared(gauss_weight(rng, n_in, n_h), 'W_f', borrow=True)
self.W_c = theano.shared(gauss_weight(rng, n_in, n_h), 'W_c', borrow=True)
self.W_o = theano.shared(gauss_weight(rng, n_in, n_h), 'W_o', borrow=True)
self.U_i = theano.shared(gauss_weight(rng, n_h), 'U_i', borrow=True)
self.U_f = theano.shared(gauss_weight(rng, n_h), 'U_f', borrow=True)
self.U_c = theano.shared(gauss_weight(rng, n_h), 'U_c', borrow=True)
self.U_o = theano.shared(gauss_weight(rng, n_h), 'U_o', borrow=True)
self.b_i = theano.shared(numpy.zeros((n_h,), dtype=config.floatX),
'b_i', borrow=True)
self.b_f = theano.shared(numpy.zeros((n_h,), dtype=config.floatX),
'b_f', borrow=True)
self.b_c = theano.shared(numpy.zeros((n_h,), dtype=config.floatX),
'b_c', borrow=True)
self.b_o = theano.shared(numpy.zeros((n_h,), dtype=config.floatX),
'b_o', borrow=True)
self.params = [self.W_i, self.W_f, self.W_c, self.W_o,
self.U_i, self.U_f, self.U_c, self.U_o,
self.b_i, self.b_f, self.b_c, self.b_o]
outputs_info = [T.zeros((input.shape[1], n_h)),
T.zeros((input.shape[1], n_h))]
rval, updates = theano.scan(self._step,
sequences=[mask, input],
outputs_info=outputs_info)
# self.output is in the format (length, batchsize, n_h)
self.output = rval[0]
def get_output(self, train=False):
X = self.get_input().dimshuffle(1, 0, 2)
Vx = T.dot(X, self.V)
x_init = T.zeros((X.shape[1], self.input_dim))
s_init = T.zeros((X.shape[1], self.output_dim))
u_init = T.zeros((X.shape[1], self.causes_dim))
outputs, uptdates = scan(
self._step,
sequences=[X, Vx],
outputs_info=[x_init, s_init, u_init],
non_sequences=self.params,
truncate_gradient=self.truncate_gradient)
if self.return_mode == 'both':
return T.concatenate([outputs[1], outputs[2]],
axis=-1)
elif self.return_mode == 'states':
out = outputs[1]
elif self.return_mode == 'causes':
out = outputs[2]
else:
raise ValueError("return_model {0} not valid. Choose "
"'both', 'states' or 'causes'".format(
self.return_mode))
if self.return_sequences:
return out.dimshuffle(1, 0, 2)
else:
return out[-1]
def initial_glimpses(self, name, batch_size, sequence):
if name == "glimpses":
return tensor.zeros((batch_size, self.sequence_dim))
elif name == "weights":
return tensor.zeros((batch_size, sequence.shape[0]))
else:
raise ValueError("Unknown glimpse name {}".format(name))
def function(self, input_tensor):
init_hs = T.zeros((input_tensor.shape[1], self.output_neurons))
init_cs = T.zeros((input_tensor.shape[1], self.output_neurons))
lstm_out_1, _ = theano.scan(fn=lambda a,b,c: self.__lstm_wrapper(a,b,c,self.d_forward, go_forwards=True),
outputs_info=[init_hs,init_cs],
sequences=input_tensor,
non_sequences=None)
lstm_out_2, _ = theano.scan(fn=lambda a,b,c: self.__lstm_wrapper(a,b,c,self.d_backward, go_forwards=False),
outputs_info=[init_hs,init_cs],
sequences=input_tensor,
non_sequences=None)
lstm_out_3, _ = theano.scan(fn=lambda a,b,c: self.__lstm_wrapper(a,b,c,self.u_forward, go_forwards=True),
outputs_info=[init_hs,init_cs],
sequences=input_tensor,
non_sequences=None,
go_backwards=True)
lstm_out_4, _ = theano.scan(fn=lambda a,b,c: self.__lstm_wrapper(a,b,c,self.u_backward, go_forwards=False),
outputs_info=[init_hs,init_cs],
sequences=input_tensor,
non_sequences=None,
go_backwards=True)
return T.concatenate((lstm_out_1[0],
lstm_out_2[0],
lstm_out_3[0][::-1],
lstm_out_4[0][::-1]), axis=2)
def __init__(self, n_in, n_out, layers, decoder=linear.Linear, itype='int32'
, solver=solvers.RMSprop(0.01)):
self.data = T.matrix(dtype=itype)
self.x = self.data[:-1] # T.matrix(dtype=itype)
self.y = self.data[1:] # T.matrix(dtype=itype)
self.mask = T.matrix(dtype='int32')
self.weights = []
k,b = self.x.shape
y_layer = self.x
self.y_layers = []
m = n_in
for n in layers:
layer = lstm.LSTM(m, n)
self.weights.append(layer.weights)
y0 = T.zeros((b, n))
c0 = T.zeros((b, n))
y_layer, _ = layer.scanl(y0, c0, y_layer)
self.y_layers.append(y_layer)
m = n
decode = decoder(m, n_out)
self.weights.append(decode.weights)
yh = decode(y_layer)
self.yh = softmax.softmax(yh)
self.loss_t = T.sum(crossent.crossent(self.yh, self.y)*self.mask[1:])
self.correct = T.sum(T.eq(T.argmax(self.yh, axis=2), self.y)*self.mask[1:])
self.count = T.sum(self.mask[1:])
self.solver = solver
#compile theano functions
self._loss = theano.function([self.data, self.mask], [self.loss_t, self.correct, self.count])
self._activations = theano.function([self.data], self.y_layers+[self.yh], givens={self.x:self.data})
def best_path_decode(self, scorematrix, scorematrix_mask=None, blank_symbol=None):
"""
Computes the best path by simply choosing most likely label at each timestep
:param scorematrix: (T, C+1, B)
:param scorematrix_mask: (T, B)
:param blank_symbol: = C by default
:return: resultseq (T, B), resultseq_mask(T, B)
Speed much slower than pure python version (normally ~40 times on HTR tasks)
"""
bestlabels = tensor.argmax(scorematrix, axis=1) # (T, B)
T, Cp, B = scorematrix.shape
resultseq, resultseq_mask = tensor.zeros([T, B], dtype=scorematrix.dtype)-1, tensor.zeros([T, B], dtype=scorematrix.dtype)
if blank_symbol is None:
blank_symbol = Cp - 1
if scorematrix_mask is None:
scorematrix_mask = tensor.ones([T, B], dtype=scorematrix.dtype)
def step(labelseq, labelseq_mask, idx, resultseq, resultseq_mask, blank_symbol):
seqlen = tensor.cast(labelseq_mask.sum(), 'int32')
labelseq = self._remove_adjdup(labelseq[0:seqlen])
labelseq = self._remove_value(labelseq, blank_symbol)
seqlen2 = labelseq.size
resultseq = tensor.set_subtensor(resultseq[0:seqlen2, idx], labelseq)
resultseq_mask = tensor.set_subtensor(resultseq_mask[0:seqlen2, idx], tensor.ones_like(labelseq))
idx += 1
return idx, resultseq, resultseq_mask
outputs, updates = theano.scan(fn = step,
sequences=[bestlabels.T, scorematrix_mask.T],
outputs_info=[0, resultseq, resultseq_mask],
non_sequences=[blank_symbol],
name='decode_scan')
resultseq, resultseq_mask = outputs[1][-1], outputs[2][-1]
return resultseq, resultseq_mask
def calc_CER(self, resultseq, targetseq, resultseq_mask=None, targetseq_mask=None):
"""
Calculate the character error rate (CER) given ground truth 'targetseq' and CTC decoding output 'resultseq'
:param resultseq (T1, B)
:param resultseq_mask (T1, B)
:param targetseq (T2, B)
:param targetseq_mask (T2, B)
:return: CER scalar
"""
if resultseq_mask is None:
resultseq_mask = tensor.ones_like(resultseq)
if targetseq_mask is None:
targetseq_mask = tensor.ones_like(targetseq)
def step(result_seq, target_seq, result_seq_mask, target_seq_mask, TE, TG):
L1 = tensor.cast(result_seq_mask.sum(), 'int32')
L2 = tensor.cast(target_seq_mask.sum(), 'int32')
d = self._editdist(result_seq[0:L1], target_seq[0:L2])
TE += d
TG += target_seq_mask.sum()
return TE, TG
outputs, updates = theano.scan(fn=step,
sequences=[resultseq.T, targetseq.T, resultseq_mask.T, targetseq_mask.T],
outputs_info=[tensor.zeros(1), tensor.zeros(1)],
name='calc_CER')
TE, TG = outputs[0][-1], outputs[1][-1]
CER = TE/TG
return CER, TE, TG
def get_coefficients(self):
c1 = self.term1.coefficients
c2 = self.term2.coefficients
# First compute real terms
ar = []
cr = []
ar.append(tt.flatten(c1[0][:, None] * c2[0][None, :]))
cr.append(tt.flatten(c1[1][:, None] * c2[1][None, :]))
# Then the complex terms
ac = []
bc = []
cc = []
dc = []
# real * complex
ac.append(tt.flatten(c1[0][:, None] * c2[2][None, :]))
bc.append(tt.flatten(c1[0][:, None] * c2[3][None, :]))
cc.append(tt.flatten(c1[1][:, None] + c2[4][None, :]))
dc.append(tt.flatten(tt.zeros_like(c1[1])[:, None] + c2[5][None, :]))
ac.append(tt.flatten(c2[0][:, None] * c1[2][None, :]))
bc.append(tt.flatten(c2[0][:, None] * c1[3][None, :]))
cc.append(tt.flatten(c2[1][:, None] + c1[4][None, :]))
dc.append(tt.flatten(tt.zeros_like(c2[1])[:, None] + c1[5][None, :]))
# complex * complex
aj, bj, cj, dj = c1[2:]
ak, bk, ck, dk = c2[2:]
ac.append(
tt.flatten(
0.5 * (aj[:, None] * ak[None, :] + bj[:, None] * bk[None, :])
)
)
bc.append(
tt.flatten(
0.5 * (bj[:, None] * ak[None, :] - aj[:, None] * bk[None, :])
)
)
cc.append(tt.flatten(cj[:, None] + ck[None, :]))
dc.append(tt.flatten(dj[:, None] - dk[None, :]))
ac.append(
tt.flatten(
0.5 * (aj[:, None] * ak[None, :] - bj[:, None] * bk[None, :])
)
)
bc.append(
tt.flatten(
0.5 * (bj[:, None] * ak[None, :] + aj[:, None] * bk[None, :])
)
)
cc.append(tt.flatten(cj[:, None] + ck[None, :]))
dc.append(tt.flatten(dj[:, None] + dk[None, :]))
return [
tt.concatenate(vals, axis=0)
if len(vals)
else tt.zeros(0, dtype=self.dtype)
for vals in (ar, cr, ac, bc, cc, dc)
]
return y1, y2, y3, y4, y5
X = T.tensor4()
Z0 = T.matrix()
# draw samples from the generator
gX = gen(Z0, gwx)
# feed real data and generated data through discriminator
p_real = discrim(X)
p_gen = discrim(gX)
# compute costs based on discriminator output for real/generated data
d_cost_real = sum([bce(p, T.ones(p.shape)).mean() for p in p_real])
d_cost_gen = sum([bce(p, T.zeros(p.shape)).mean() for p in p_gen])
g_cost_d = sum([bce(p, T.ones(p.shape)).mean() for p in p_gen])
# d_cost_real = bce(p_real[-1], T.ones(p_real[-1].shape)).mean()
# d_cost_gen = bce(p_gen[-1], T.zeros(p_gen[-1].shape)).mean()
# g_cost_d = bce(p_gen[-1], T.ones(p_gen[-1].shape)).mean()
d_cost = d_cost_real + d_cost_gen + (
1e-5 * sum([T.sum(p**2.0) for p in discrim_params]))
g_cost = g_cost_d + (1e-5 * sum([T.sum(p**2.0) for p in gen_params]))
cost = [g_cost, d_cost, g_cost_d, d_cost_real, d_cost_gen]
lrt = sharedX(lr)
d_updater = updates.Adam(lr=lrt, b1=b1, regularizer=updates.Regularizer(l2=l2))
g_updater = updates.Adam(lr=lrt, b1=b1, regularizer=updates.Regularizer(l2=l2))
def fit(self,
trees,
learning_rate=3 * 1e-3,
mu=0.99,
reg=1e-4,
epochs=15,
activation=T.nnet.relu,
train_inner_nodes=False):
D = self.D
V = self.V
K = self.K
self.f = activation
N = len(trees)
We = init_weight(V, D)
Wh = np.random.randn(2, D, D) / np.sqrt(2 + D + D)
bh = np.zeros(D)
Wo = init_weight(D, K)
bo = np.zeros(K)
self.We = theano.shared(We)
self.Wh = theano.shared(Wh)
self.bh = theano.shared(bh)
self.Wo = theano.shared(Wo)
self.bo = theano.shared(bo)
self.params = [self.We, self.Wh, self.bh, self.Wo, self.bo]
words = T.ivector('words')
parents = T.ivector('parents')
relations = T.ivector('relations')
labels = T.ivector('labels')
def recurrence(n, hiddens, words, parents, relations):
w = words[n]
hiddens = T.switch(
T.ge(w, 0), T.set_subtensor(hiddens[n], self.We[w]),
T.set_subtensor(hiddens[n], self.f(hiddens[n] + self.bh)))
r = relations[n]
p = parents[n]
hiddens = T.switch(
T.ge(p, 0),
T.set_subtensor(hiddens[p],
hiddens[p] + hiddens[n].dot(self.Wh[r])),
hiddens)
return hiddens
hiddens = T.zeros((words.shape[0], D))
h, _ = theano.scan(
fn=recurrence,
outputs_info=[hiddens],
n_steps=words.shape[0],
sequences=T.arange(words.shape[0]),
non_sequences=[words, parents, relations],
)
py_x = T.nnet.softmax(h[-1].dot(self.Wo) + self.bo)
prediction = T.argmax(py_x, axis=1)
rcost = reg * T.mean([(p * p).sum() for p in self.params])
if train_inner_nodes:
cost = -T.mean(T.log(py_x[T.arange(labels.shape[0]),
labels])) + rcost
else:
cost = -T.mean(T.log(py_x[-1, labels[-1]])) + rcost
# grads = T.grad(cost, self.params)
# dparams = [theano.shared(p.get_value()*0) for p in self.params]
#
# updates = [
# (p, p * mu*dp - learning_rate*g) for p, dp, g in zip(self.params, dparams, grads)
# ] + [
# (dp, mu*dp - learning_rate*g) for dp, g in zip(dparams, grads)
# ]
updates = adagrad(cost, self.params, lr=1e-4)
self.cost_predict_op = theano.function(
inputs=[words, parents, relations, labels],
outputs=[cost, prediction],
allow_input_downcast=True,
)
self.train_op = theano.function(
inputs=[words, parents, relations, labels],
outputs=[h, cost, prediction],
updates=updates)
costs = []
sequence_indexes = range(N)
if train_inner_nodes:
n_total = sum(len(words) for words, _, _, _ in trees)
else:
n_total = N
for i in range(epochs):
t0 = datetime.now()
sequence_indexes = shuffle(sequence_indexes)
n_correct = 0
cost = 0
it = 0
for j in sequence_indexes:
words, par, rel, lab = trees[j]
_, c, p = self.train_op(words, par, rel, lab)
cost += c
if train_inner_nodes:
n_correct += np.sum(p == lab)
else:
n_correct += (p[-1] == lab[-1])
it += 1
if it % 1 == 0:
sys.stdout.write(
"j/N: %d/%d correct rate so far: %f, cost so far: %f/r"
% (it, N, float(n_correct / n_total), cost))
sys.stdout.flush()
print("i:", i, "cost:", cost, "correct rate:",
(float(n_correct) / n_total), "time for epoch:",
(datetime.now() - t0))
costs.append(cost)
print('costs:', costs)
plt.plot(costs)
plt.show()
def neibs2images(neibs, neib_shape, original_shape, mode='valid'):
"""
Function :func:`neibs2images <theano.sandbox.neighbours.neibs2images>`
performs the inverse operation of
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>`. It inputs
the output of :func:`images2neibs <theano.sandbox.neigbours.neibs2images>`
and reconstructs its input.
Parameters
----------
neibs : 2d tensor
Like the one obtained by
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>`.
neib_shape
`neib_shape` that was used in
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>`.
original_shape
Original shape of the 4d tensor given to
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>`
Returns
-------
object
Reconstructs the input of
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>`,
a 4d tensor of shape `original_shape`.
Notes
-----
Currently, the function doesn't support tensors created with
`neib_step` different from default value. This means that it may be
impossible to compute the gradient of a variable gained by
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>` w.r.t.
its inputs in this case, because it uses
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>` for
gradient computation.
Examples
--------
Example, which uses a tensor gained in example for
:func:`images2neibs <theano.sandbox.neigbours.neibs2images>`:
.. code-block:: python
im_new = neibs2images(neibs, (5, 5), im_val.shape)
# Theano function definition
inv_window = theano.function([neibs], im_new)
# Function application
im_new_val = inv_window(neibs_val)
.. note:: The code will output the initial image array.
"""
neibs = T.as_tensor_variable(neibs)
neib_shape = T.as_tensor_variable(neib_shape)
original_shape = T.as_tensor_variable(original_shape)
new_neib_shape = T.stack([original_shape[-1] // neib_shape[1],
neib_shape[1]])
output_2d = images2neibs(neibs.dimshuffle('x', 'x', 0, 1),
new_neib_shape, mode=mode)
if mode == 'ignore_borders':
# We use set_subtensor to accept original_shape we can't infer
# the shape and still raise error when it don't have the right
# shape.
valid_shape = original_shape
valid_shape = T.set_subtensor(
valid_shape[2],
(valid_shape[2] // neib_shape[0]) * neib_shape[0])
valid_shape = T.set_subtensor(
valid_shape[3],
(valid_shape[3] // neib_shape[1]) * neib_shape[1])
output_4d = output_2d.reshape(valid_shape, ndim=4)
# padding the borders with zeros
for d in [2, 3]:
pad_shape = list(output_4d.shape)
pad_shape[d] = original_shape[d] - valid_shape[d]
output_4d = T.concatenate([output_4d, T.zeros(pad_shape)], axis=d)
elif mode == 'valid':
# TODO: we do not implement all mode with this code.
# Add a check for the good cases.
output_4d = output_2d.reshape(original_shape, ndim=4)
else:
raise NotImplementedError("neibs2images do not support mode=%s" % mode)
return output_4d
def theano_expr(self, targets, mode='stack', sparse=False):
"""
Return the one-hot transformation as a symbolic expression.
If labels appear multiple times, their value in the one-hot
vector is incremented.
Parameters
----------
targets : tensor_like, 1- or 2-dimensional, integer dtype
A symbolic tensor representing labels as integers
between 0 and `max_labels` - 1, `max_labels` supplied
at formatter construction.
mode : string
The way in which to convert the labels to arrays. Takes
three different options:
- "concatenate" : concatenates the one-hot vectors from
multiple labels
- "stack" : returns a matrix where each row is the
one-hot vector of a label
- "merge" : merges the one-hot vectors together to
form a vector where the elements are
the result of an indicator function
NB: As the result of an indicator function
the result is the same in case a label
is duplicated in the input.
sparse : bool
If true then the return value is sparse matrix. Note that
if sparse is True, then mode cannot be 'stack' because
sparse matrices need to be 2D
Returns
-------
one_hot : TensorVariable, 1, 2 or 3-dimensional, sparse or dense
A symbolic tensor representing a one-hot encoding of the \
supplied labels.
"""
if mode not in ('concatenate', 'stack', 'merge'):
raise ValueError("%s got bad mode argument '%s'" %
(self.__class__.__name__, str(self._max_labels)))
elif mode == 'stack' and sparse:
raise ValueError("Sparse matrices need to be 2D, hence they"
"cannot be stacked")
squeeze_required = False
if targets.ndim != 2:
if targets.ndim == 1:
squeeze_required = True
targets = targets.dimshuffle('x', 0)
else:
raise ValueError("targets tensor must be 1 or 2-dimensional")
if 'int' not in str(targets.dtype):
raise TypeError("need an integer tensor for targets")
if sparse:
if mode == 'concatenate':
one_hot = theano.sparse.CSR(
tensor.ones_like(targets, dtype=self._dtype).flatten(),
(targets.flatten() + tensor.arange(targets.size) *
self._max_labels) % (self._max_labels * targets.shape[1]),
tensor.arange(targets.shape[0] + 1) * targets.shape[1],
tensor.stack(targets.shape[0],
self._max_labels * targets.shape[1])
)
else:
one_hot = theano.sparse.CSR(
tensor.ones_like(targets, dtype=self._dtype).flatten(),
targets.flatten(),
tensor.arange(targets.shape[0] + 1) * targets.shape[1],
tensor.stack(targets.shape[0], self._max_labels)
)
else:
if mode == 'concatenate':
one_hot = tensor.zeros((targets.shape[0] * targets.shape[1],
self._max_labels))
one_hot = tensor.set_subtensor(
one_hot[tensor.arange(targets.size),
targets.flatten()], 1)
one_hot = one_hot.reshape((targets.shape[0],
targets.shape[1] * self._max_labels))
elif mode == 'merge':
one_hot = tensor.zeros((targets.shape[0], self._max_labels))
one_hot = tensor.set_subtensor(
one_hot[tensor.arange(targets.size) % targets.shape[0],
targets.T.flatten()], 1)
else:
one_hot = tensor.zeros((targets.shape[0], targets.shape[1],
self._max_labels))
one_hot = tensor.set_subtensor(one_hot[
tensor.arange(targets.shape[0]).reshape((targets.shape[0],
1)),
tensor.arange(targets.shape[1]),
targets
], 1)
if squeeze_required:
if one_hot.ndim == 2:
one_hot = one_hot.reshape((one_hot.shape[1],))
if one_hot.ndim == 3:
one_hot = one_hot.reshape((one_hot.shape[1],
one_hot.shape[2]))
return one_hot
def step(batch_idx, out_seq_b1):
#out_seq = seq[T.ge(idx[:, batch_idx], 0).nonzero(), batch_idx][0]
out_seq = seq[:, batch_idx][T.ge(idx[:, batch_idx], 0).nonzero()]
return T.concatenate((out_seq,
T.zeros((max_seq_len - out_seq.shape[0], ),
dtype=seq.dtype)))
v_gen_embed = lasagne.layers.get_output(l_embed_char, v_gen_input)
# Freeze the hidden inputs of the decoder layers, which do not tap into the encoder.
for layer in dec_rnn_layers:
GRULayer_freeze(layer, v_gen_input)
# Readout the last state from the encoder.
inputs = {l_encoder_embed: v_gen_embed, l_encoder_mask: tt.ge(v_gen_input, 0)}
outputs = [l.hid_init for l in dec_rnn_layers]
dec_hid_inits = lasagne.layers.get_output(outputs, inputs, deterministic=True)
# Prepare the initial values fed into the scan loop of the Generator
h_0 = tt.concatenate(dec_hid_inits, axis=-1)
x_0 = tt.fill(tt.zeros((v_gen_input.shape[0], ), dtype="int32"),
vocab.index("\x02"))
x_0 = lasagne.layers.get_output(l_embed_char, x_0)
m_0 = tt.ones((v_gen_input.shape[0], ), 'bool')
# Compile the Generator's scan op
result, updates = theano.scan(generator_step_sm,
sequences=None,
n_steps=n_steps,
outputs_info=[x_0, h_0, m_0, None, None],
strict=False,
return_list=True,
non_sequences=[tau, eps],
go_backwards=False,
name="generator/scan")
def get_output_for(self, inputs, **kwargs):
"""
Compute this layer's output function given a symbolic input variable
Parameters
----------
input : theano.TensorType
Symbolic input variable.
mask : theano.TensorType
Theano variable denoting whether each time step in each
sequence in the batch is part of the sequence or not. If ``None``,
then it is assumed that all sequences are of the same length. If
not all sequences are of the same length, then it must be
supplied as a matrix of shape ``(n_batch, n_time_steps)`` where
``mask[i, j] = 1`` when ``j <= (length of sequence i)`` and
``mask[i, j] = 0`` when ``j > (length of sequence i)``.
Returns
-------
layer_output : theano.TensorType
Symblic output variable.
"""
input = inputs[0]
# Retrieve the mask when it is supplied
mask = inputs[1] if len(inputs) > 1 else None
# Treat all dimensions after the second as flattened feature dimensions
if input.ndim > 3:
input = input.reshape(
(input.shape[0], input.shape[1], T.prod(input.shape[2:])))
num_batch = input.shape[0]
encode_seqlen = input.shape[1]
if mask is None:
mask = T.ones((num_batch, encode_seqlen), dtype='float32')
# At each call to scan, input_n will be (n_time_steps, 4*num_units).
# We define a slicing function that extract the input to each LSTM gate
def slice_w(x, n):
return x[:, n * self.num_units:(n + 1) * self.num_units]
# Create single recurrent computation step function
# input_n is the n'th vector of the input
def step(cell_previous, hid_previous, alpha_prev, weighted_hidden_prev,
input, mask, hUa, W_align, v_align, W_hid_stacked,
W_weightedhid_stacked, W_cell_to_ingate, W_cell_to_forgetgate,
W_cell_to_outgate, b_stacked, *args):
#compute (unormalized) attetion vector
sWa = T.dot(hid_previous, W_align) # (BS, aln_num_units)
sWa = sWa.dimshuffle(0, 'x', 1) # (BS, 1, aln_num_units)
align_act = sWa + hUa
tanh_sWahUa = self.nonlinearity_align(align_act)
# (BS, seqlen, num_units_aln)
# CALCULATE WEIGHT FOR EACH HIDDEN STATE VECTOR
a = T.dot(tanh_sWahUa, v_align) # (BS, Seqlen, 1)
a = T.reshape(a, (a.shape[0], a.shape[1]))
# # (BS, Seqlen)
# # ->(BS, seq_len)
a = a * mask - (1 - mask) * 10000
alpha = self.attention_softmax_function(a)
#alpha = T.reshape(alpha, (input.shape[0], input.shape[1]))
# input: (BS, Seqlen, num_units)
weighted_hidden = input * alpha.dimshuffle(0, 1, 'x')
weighted_hidden = T.sum(weighted_hidden, axis=1) #sum seqlen out
# Calculate gates pre-activations and slice
# (BS, dec_hid) x (dec_hid, dec_hid)
gates = T.dot(hid_previous, W_hid_stacked) + b_stacked
# (BS, enc_hid) x (enc_hid, dec_hid)
gates += T.dot(weighted_hidden, W_weightedhid_stacked)
# Clip gradients
if self.grad_clipping is not False:
gates = theano.gradient.grad_clip(gates, -self.grad_clipping,
self.grad_clipping)
# Extract the pre-activation gate values
ingate = slice_w(gates, 0)
forgetgate = slice_w(gates, 1)
cell_input = slice_w(gates, 2)
outgate = slice_w(gates, 3)
if self.peepholes:
# Compute peephole connections
ingate += cell_previous * W_cell_to_ingate
forgetgate += cell_previous * W_cell_to_forgetgate
# Apply nonlinearities
ingate = self.nonlinearity_ingate(ingate)
forgetgate = self.nonlinearity_forgetgate(forgetgate)
cell_input = self.nonlinearity_cell(cell_input)
outgate = self.nonlinearity_outgate(outgate)
# Compute new cell value
cell = forgetgate * cell_previous + ingate * cell_input
if self.peepholes:
outgate += cell * W_cell_to_outgate
# W_align: (num_units, aln_num_units)
# U_align: (num_feats, aln_num_units)
# v_align: (aln_num_units, 1)
# hUa: (BS, Seqlen, aln_num_units)
# hid: (BS, num_units_dec)
# input: (BS, Seqlen, num_inputs)
# Compute new hidden unit activation
hid = outgate * self.nonlinearity_out(cell)
return [cell, hid, alpha, weighted_hidden]
sequences = []
step_fun = step
ones = T.ones((num_batch, 1))
if isinstance(self.cell_init, T.TensorVariable):
cell_init = self.cell_init
else:
# Dot against a 1s vector to repeat to shape (num_batch, num_units)
cell_init = T.dot(ones, self.cell_init)
if isinstance(self.hid_init, T.TensorVariable):
hid_init = self.hid_init
else:
# Dot against a 1s vector to repeat to shape (num_batch, num_units)
hid_init = T.dot(ones, self.hid_init)
#weighted_hidden_init = T.zeros((num_batch, input.shape[2]))
alpha_init = T.zeros((num_batch, encode_seqlen))
weighted_hidden_init = T.zeros((num_batch, self.num_inputs))
# The hidden-to-hidden weight matrix is always used in step
hUa = T.dot(input, self.U_align) # (num_batch, seq_len, num_units_aln)
non_seqs = [
input, mask, hUa, self.W_align, self.v_align, self.W_hid_stacked,
self.W_weightedhid_stacked
]
# The "peephole" weight matrices are only used when self.peepholes=True
if self.peepholes:
non_seqs += [
self.W_cell_to_ingate, self.W_cell_to_forgetgate,
self.W_cell_to_outgate
]
# theano.scan only allows for positional arguments, so when
# self.peepholes is False, we need to supply fake placeholder arguments
# for the three peephole matrices.
else:
non_seqs += [(), (), ()]
# When we aren't precomputing the input outside of scan, we need to
# provide the input weights and biases to the step function
non_seqs += [self.b_stacked]
if self.unroll_scan:
# Explicitly unroll the recurrence instead of using scan
cell_out, hid_out, alpha_out, weighted_hidden_out = unroll_scan(
fn=step_fun,
sequences=sequences,
outputs_info=[
cell_init, hid_init, alpha_init, weighted_hidden_init
],
go_backwards=self.backwards,
non_sequences=non_seqs,
n_steps=self.n_decodesteps + self.decode_pre_steps)
else:
# Scan op iterates over first dimension of input and repeatedly
# applies the step function
cell_out, hid_out, alpha_out, weighted_hidden_out = theano.scan(
fn=step_fun,
sequences=sequences,
outputs_info=[
cell_init, hid_init, alpha_init, weighted_hidden_init
],
go_backwards=self.backwards,
truncate_gradient=self.gradient_steps,
non_sequences=non_seqs,
n_steps=self.n_decodesteps + self.decode_pre_steps,
strict=True)[0]
# dimshuffle back to (n_batch, n_time_steps, n_features))
#a_out - (n_decodesteps, bs, seqlen)
#hid_out - (n_decode_steps, bs, num_units)
# mask: (BS, encode_seqlen
# a_out; (n_decodesteps, BS, encode_seqlen)
cell_out = cell_out.dimshuffle(1, 0, 2)
hid_out = hid_out.dimshuffle(1, 0,
2) # (BS, n_decodesteps, encode_seqlen)
mask = mask.dimshuffle(0, 'x', 1)
alpha_out = alpha_out.dimshuffle(
1, 0, 2) # (BS, n_decodesteps, encode_seqlen)
weighted_hidden_out = weighted_hidden_out.dimshuffle(1, 0, 2)
# if scan is backward reverse the output
if self.backwards:
hid_out = hid_out[:, ::-1]
cell_out = cell_out[:, ::-1]
weighted_hidden_out = weighted_hidden_out[:, ::-1]
alpha_out = alpha_out[:, ::-1]
if self.decode_pre_steps > 0:
hid_out = hid_out[:, self.decode_pre_steps:]
cell_out = hid_out[:, self.decode_pre_steps:]
weighted_hidden_out = weighted_hidden_out[:,
self.decode_pre_steps:]
alpha_out = hid_out[:, self.decode_pre_steps:]
self.hid_out = hid_out
self.cell_out = cell_out
self.weighted_hidden_out = weighted_hidden_out
self.alpha = alpha_out
if self.return_decodehid:
return hid_out
else:
return weighted_hidden_out
def log_ctc(self, labels_len_const):
def _build_diag(_d):
extend_I = T.eye(labels_len + 2)
return T.eye(labels_len) + extend_I[
1:-1, :-2] + extend_I[2:, :-2] * _d[:, None]
# prepare y
n_samples, labels_len = self.y.shape
y1 = T.concatenate(
[self.y, T.ones((self.y.shape[0], 2)) * self.blank], axis=1)
diag = T.neq(y1[:, :-2], y1[:, 2:]) * T.neq(y1[:, 2:], self.blank)
# stretch out, (labels_len, n_samples*labels_len)
diags0, _ = theano.scan(fn=_build_diag,
sequences=[diag],
n_steps=n_samples)
shape = diags0.shape
diags = T.transpose(diags0, (1, 0, 2)).reshape(
(shape[1], shape[0] * shape[2]))
# prepare x
assert self.x.ndim == 3
# (n_steps, n_samples, softmax_output) to (n_steps, n_samples, labels_len)
x1 = self.x[:, T.arange(n_samples)[:, None], self.y]
dims = x1.shape
# stretch out, (n_steps, n_samples * labels_len)
x2 = x1.reshape((dims[0], dims[1] * dims[2]))
def log_matrix_dot(x, y, z):
v1 = x[:, :, None]
v2 = T.tile(v1, (1, 1, labels_len_const))
v2_shape = v2.shape
v3 = T.transpose(v2, (1, 0, 2)).reshape(
(v2_shape[1], v2_shape[0] * v2_shape[2]))
v4 = v3 + y
m = T.max(v4, axis=0)
v5 = v4 - m[None, :]
# mask = T.nonzero(T.isnan(v5))
# v6 = T.set_subtensor(v5[mask], -np.inf)
# v7 = T.exp(v5)
v7 = safe_exp(v5)
v8 = T.sum(v7, axis=0)
# v9 = T.log(v8)
v9 = safe_log(v8)
v10 = v9 + m
v11 = v10 + z
v12 = v11.reshape((n_samples, labels_len))
return v12
# each step
def _step(m_, s_, h_, diags):
v = log_matrix_dot(h_, diags, s_)
m_extend = T.tile(m_[:, None], (1, labels_len_const))
p = T.switch(m_extend, v, h_)
return p
# scan loop
log_x2 = safe_log(x2)
log_outputs_info = safe_log(
T.set_subtensor(
T.zeros((n_samples, labels_len),
dtype=theano.config.floatX)[:, 0], 1))
log_diags = safe_log(diags)
self.pin0 = log_x2
self.pin1 = log_outputs_info
self.pin2 = log_diags
self.debug, _ = theano.scan(fn=_step,
sequences=[self.x_mask.T, log_x2],
outputs_info=[log_outputs_info],
non_sequences=[log_diags])
# prepare y_clip
y_clip1 = T.concatenate([(self.y_clip - 2)[:, None],
(self.y_clip - 1)[:, None]],
axis=1)
self.prob = self.debug[-1][T.arange(n_samples)[:, None], y_clip1]
# compute loss
mx = T.max(self.prob, axis=1)
l1 = self.prob - mx[:, None]
# l2 = T.sum(T.exp(l1), axis=1)
# l3 = T.log(l2) + mx
l2 = T.sum(safe_exp(l1), axis=1)
l3 = safe_log(l2) + mx
self.loss = T.mean(-l3)
def t_initial_state(self):
# return theano.shared(name='initstate0',value=self.initial_state.astype(theano.config.floatX))
return T.concatenate([self._t_state0, T.zeros(self._win_dim)], axis=0)
def get_output_for(self, input, deterministic=False, **kwargs):
out, r = T.zeros(self.get_output_shape_for(input.shape)), self.upscale
for y, x in itertools.product(range(r), repeat=2):
out=T.inc_subtensor(out[:,:,y::r,x::r], input[:,r*y+x::r*r,:,:])
return out
def conv1d_sd(input,
filters,
image_shape,
filter_shape,
border_mode='valid',
subsample=(1, )):
"""
Using a single dot product.
border_mode has to be 'valid' at the moment.
"""
if border_mode != 'valid':
log.error("Unsupported border_mode for conv1d_sd: " "%s" % border_mode)
raise RuntimeError("Unsupported border_mode for conv1d_sd: "
"%s" % border_mode)
batch_size, num_input_channels, input_length = image_shape
num_filters, num_input_channels_, filter_length = filter_shape
stride = subsample[0]
if filter_length % stride > 0:
raise RuntimeError("Filter length (%d) is not a multiple of the "
"stride (%d)" % (filter_length, stride))
num_steps = filter_length // stride
output_length = (input_length - filter_length + stride) // stride
# pad the input so all the shifted dot products fit inside.
# shape is (b, c, l)
padded_length = ((input_length // filter_length) * filter_length +
(num_steps - 1) * stride)
# at this point, it is possible that the padded_length is SMALLER than the
# input size. so then we have to truncate first.
truncated_length = min(input_length, padded_length)
input_truncated = input[:, :, :truncated_length]
input_padded_shape = (batch_size, num_input_channels, padded_length)
input_padded = T.zeros(input_padded_shape)
input_padded = T.set_subtensor(input_padded[:, :, :truncated_length],
input_truncated)
inputs = []
for num in range(num_steps):
shift = num * stride
length = (padded_length - shift) // filter_length
r_input_shape = (batch_size, num_input_channels, length, filter_length)
r_input = input_padded[:, :, shift:length * filter_length +
shift].reshape(r_input_shape)
inputs.append(r_input)
inputs_stacked = T.stack(*inputs) # shape is (n, b, c, w, f)
filters_flipped = filters[:, :, ::-1]
r_conved = T.tensordot(
inputs_stacked, filters_flipped,
numpy.asarray([[2, 4], [1, 2]], dtype=theano.config.floatX))
# resulting shape is (n, b, w, n_filters)
# output needs to be (b, n_filters, w * n)
r_conved = r_conved.dimshuffle(1, 3, 2, 0) # (b, n_filters, w, n)
conved = r_conved.reshape((r_conved.shape[0], r_conved.shape[1],
r_conved.shape[2] * r_conved.shape[3]))
# result is (b, n_f, l)
# remove padding
return conved[:, :, :output_length]
def do_preprocess_scan(self, deterministic_dropout=False, **kwargs):
"""
Run a scan using this LSTM, preprocessing all inputs before the scan.
Parameters:
kwargs[k]: should be a theano tensor of shape (n_batch, n_time, ... )
Note that "relative_position" should be a keyword argument given here if there are relative
shifts.
deterministic_dropout: If True, apply dropout deterministically, scaling everything. If false,
sample dropout
Returns:
A theano tensor of shape (n_batch, n_time, output_size) of activations
"""
assert len(kwargs) > 0, "Need at least one input argument!"
n_batch, n_time = list(kwargs.values())[0].shape[:2]
squashed_kwargs = {
k: v.reshape([n_batch * n_time] + [x for x in v.shape[2:]])
for k, v in kwargs.items()
}
full_input = T.concatenate(
[part.generate(**squashed_kwargs) for part in self.input_parts], 1)
adjusted_input = full_input.reshape([n_batch, n_time,
self.input_size]).dimshuffle(
(1, 0, 2))
if "relative_position" in kwargs:
relative_position = kwargs["relative_position"]
diff_shifts = T.extra_ops.diff(relative_position, axis=1)
cat_shifts = T.concatenate(
[T.zeros((n_batch, 1), 'int32'), diff_shifts], 1)
shifts = cat_shifts.dimshuffle((1, 0))
else:
shifts = T.zeros(n_time, n_batch, 'int32')
def _scan_fn(in_data, shifts, *other):
other = list(other)
if self.dropout and not deterministic_dropout:
split = -len(self.tot_layer_sizes)
hiddens = other[:split]
masks = [None] + other[split:]
else:
masks = []
hiddens = other
return self.perform_step(in_data,
shifts,
hiddens,
dropout_masks=masks)
if self.dropout and not deterministic_dropout:
dropout_masks = UpscaleMultiDropout(
[(n_batch, shape) for shape in self.tot_layer_sizes],
self.dropout)
else:
dropout_masks = []
outputs_info = [
initial_state_with_taps(layer, n_batch)
for layer in self.cells.layers
]
result, _ = theano.scan(fn=_scan_fn,
sequences=[adjusted_input, shifts],
non_sequences=dropout_masks,
outputs_info=outputs_info)
final_out = get_last_layer(result).transpose((1, 0, 2))
return final_out
def get_real_coefficients(self):
return (tt.zeros(0, dtype=self.dtype), tt.zeros(0, dtype=self.dtype))
def build_generator(self, version=1, encode=False):
#from lasagne.layers import TransposedConv2DLayer as Deconv2DLayer
global mask
if mask is None:
mask = T.zeros(shape=(self.batch_size, 1, 64, 64),
dtype=theano.config.floatX)
mask = T.set_subtensor(mask[:, :, 16:48, 16:48], 1.)
self.mask = mask
noise_dim = (self.batch_size, 100)
theano_rng = MRG_RandomStreams(rng.randint(2**15))
noise = theano_rng.uniform(size=noise_dim)
# mask_color = T.cast(T.cast(theano_rng.uniform(size=(self.batch_size,), low=0., high=2.), 'int16').dimshuffle(0, 'x', 'x', 'x') * mask, dtype=theano.config.floatX)
input = ll.InputLayer(shape=noise_dim, input_var=noise)
cropped_image = T.cast(T.zeros_like(self.input_) * mask +
(1. - mask) * self.input_,
dtype=theano.config.floatX)
encoder_input = T.concatenate([cropped_image, mask],
axis=1) # shoudl concat wrt channels
if version == 1:
if encode:
gen_layers = [
ll.InputLayer(shape=(self.batch_size, 4, 64, 64),
input_var=encoder_input)
] # 3 x 64 x 64 --> 64 x 32 x 32
gen_layers.append(
nn.batch_norm(
ll.Conv2DLayer(gen_layers[-1],
64,
4,
2,
pad=1,
nonlinearity=nn.lrelu))
) # 64 x 32 x 32 --> 128 x 16 x 16
gen_layers.append(
nn.batch_norm(
ll.Conv2DLayer(gen_layers[-1],
128,
4,
2,
pad=1,
nonlinearity=nn.lrelu))
) # 128 x 16 x 16 --> 256 x 8 x 8
gen_layers.append(
nn.batch_norm(
ll.Conv2DLayer(gen_layers[-1],
256,
4,
2,
pad=1,
nonlinearity=nn.lrelu))
) # 256 x 8 x 8 --> 512 x 4 x 4
gen_layers.append(
nn.batch_norm(
ll.Conv2DLayer(gen_layers[-1],
512,
4,
2,
pad=1,
nonlinearity=nn.lrelu))
) # 512 x 4 x 4 --> 1024 x 2 x 2
gen_layers.append(
nn.batch_norm(
ll.Conv2DLayer(gen_layers[-1],
4000,
4,
4,
pad=1,
nonlinearity=nn.lrelu))
) # 1024 x 2 x 2 --> 2048 x 1 x 1
#gen_layers.append(nn.batch_norm(ll.Conv2DLayer(gen_layers[-1], 2048, 4, 2, pad=1, nonlinearity=nn.lrelu)))
# flatten this out
#gen_layers.append(ll.FlattenLayer(gen_layers[-1]))
gen_layers.append(
nn.batch_norm(
nn.Deconv2DLayer(gen_layers[-1],
(self.batch_size, 128 * 4, 4, 4),
(5, 5),
stride=(4, 4))))
# concat with noise
latent_size = 2048
else:
gen_layers = [input]
latent_size = 100
# TODO : put batchorm back on all layers, + g=None
gen_layers.append(
ll.DenseLayer(gen_layers[-1],
128 * 8 * 4 * 4,
W=Normal(0.02)))
gen_layers.append(
ll.ReshapeLayer(gen_layers[-1],
(self.batch_size, 128 * 8, 4, 4)))
# creating array of mixing coefficients (shared Theano floats) that will be used for mixing generated_output and image at each layer
mixing_coefs = [
theano.shared(lasagne.utils.floatX(0.05)) for i in range(2)
]
# theano.shared(lasagne.utils.floatX(np.array([0.5]))) for i in range(3)]
mixing_coefs.append(theano.shared(lasagne.utils.floatX(1)))
border = 2
gen_layers.append(
nn.batch_norm(nn.Deconv2DLayer(
gen_layers[-1], (self.batch_size, 128 * 2, 8, 8), (5, 5),
W=Normal(0.02),
nonlinearity=nn.relu),
g=None)) # 4 -> 8
#gen_layers.append(ll.DropoutLayer(gen_layers[-1],p=0.5))
#gen_layers.append(nn.ResetDeconvLayer(gen_layers[-1], cropped_image, mixing_coefs[0], border=border))
#layer_a = nn.ResetDeconvLayer(gen_layers[-1], cropped_image, mixing_coefs[0]) # all new
#layer_concat_a = ll.ConcatLayer([layer_a, gen_layers[-1]], axis=1)
#gen_layers.append(layer_concat_a)
gen_layers.append(
nn.batch_norm(nn.Deconv2DLayer(gen_layers[-1],
(self.batch_size, 128, 16, 16),
(5, 5),
W=Normal(0.02),
nonlinearity=nn.relu),
g=None)) # 8 -> 16
#gen_layers.append(ll.DropoutLayer(gen_layers[-1],p=0.5))
#gen_layers.append(nn.ResetDeconvLayer(gen_layers[-1], cropped_image, mixing_coefs[1], border=border*2))
#layer_b = nn.ResetDeconvLayer(gen_layers[-1], cropped_image, mixing_coefs[1]) # all new
#layer_concat_b = ll.ConcatLayer([layer_b, gen_layers[-1]], axis=1)
#gen_layers.append(layer_concat_b)
gen_layers.append(
nn.batch_norm(nn.Deconv2DLayer(gen_layers[-1],
(self.batch_size, 64, 32, 32),
(5, 5),
W=Normal(0.02),
nonlinearity=nn.relu),
g=None)) # 16 -> 32
#gen_layers.append(ll.DropoutLayer(gen_layers[-1],p=0.5))
#gen_layers.append(nn.ResetDeconvLayer(gen_layers[-1], cropped_image, mixing_coefs[2], border=border*2*2))
#layer_c = nn.ResetDeconvLayer(gen_layers[-1], cropped_image, mixing_coefs[1]) # all new
#layer_concat_c = ll.ConcatLayer([layer_c, gen_layers[-1]], axis=1)
#gen_layers.append(layer_concat_c)
gen_layers.append(
nn.Deconv2DLayer(
gen_layers[-1], (self.batch_size, 3, 64, 64), (5, 5),
W=Normal(0.02),
nonlinearity=lasagne.nonlinearities.sigmoid)) # 32 -> 64
#gen_layers.append(ll.DropoutLayer(gen_layers[-1],p=0.5))
#gen_layers.append(nn.ResetDeconvLayer(gen_layers[-1], cropped_image, mixing_coefs[3], border=border*2*2*2, trainable=False))
for layer in gen_layers:
print layer.output_shape
print ''
GAN.mixing_coefs = mixing_coefs
return gen_layers
def __theano_build__(self):
E, V, U, W, b, c = self.E, self.V, self.U, self.W, self.b, self.c
x = T.ivector('x')
y = T.ivector('y')
def forward_prop_step(x_t, s_prev):
# Word embedding layer
x_e = E[:, x_t]
# GRU Layer 1
z = T.nnet.hard_sigmoid(U[0].dot(x_e) + W[0].dot(s_prev) + b[0])
r = T.nnet.hard_sigmoid(U[1].dot(x_e) + W[1].dot(s_prev) + b[1])
c = T.tanh(U[2].dot(x_e) + W[2].dot(s_prev * r) + b[2])
s = (T.ones_like(z) - z) * c + z * s_prev
# Final output calculation
# Theano's softmax returns a matrix with one row, we only need the row
o_t = T.nnet.softmax(V.dot(s) + c)[0]
return [o_t, s]
[o, s], updates = theano.scan(
forward_prop_step,
sequences=x,
truncate_gradient=self.bptt_truncate,
outputs_info=[None, dict(initial=T.zeros(self.hidden_dim))])
prediction = T.argmax(o, axis=1)
o_error = T.sum(T.nnet.categorical_crossentropy(o, y))
# Total cost (could add regularization here)
cost = o_error
# Gradients
dE = T.grad(cost, E)
dU = T.grad(cost, U)
dW = T.grad(cost, W)
db = T.grad(cost, b)
dV = T.grad(cost, V)
dc = T.grad(cost, c)
# Assign functions
self.predict = theano.function([x], [o], allow_input_downcast=True)
self.predict_class = theano.function([x],
prediction,
allow_input_downcast=True)
self.ce_error = theano.function([x, y],
cost,
allow_input_downcast=True)
self.bptt = theano.function([x, y], [dE, dU, dW, db, dV, dc],
allow_input_downcast=True)
# SGD parameters
learning_rate = T.scalar('learning_rate')
decay = T.scalar('decay')
# rmsprop cache updates
mE = decay * self.mE + (1 - decay) * dE**2
mU = decay * self.mU + (1 - decay) * dU**2
mW = decay * self.mW + (1 - decay) * dW**2
mV = decay * self.mV + (1 - decay) * dV**2
mb = decay * self.mb + (1 - decay) * db**2
mc = decay * self.mc + (1 - decay) * dc**2
self.sgd_step = theano.function(
[x, y, learning_rate,
theano.In(decay, value=0.9)], [],
updates=[(E, E - learning_rate * dE / T.sqrt(mE + 1e-6)),
(U, U - learning_rate * dU / T.sqrt(mU + 1e-6)),
(W, W - learning_rate * dW / T.sqrt(mW + 1e-6)),
(V, V - learning_rate * dV / T.sqrt(mV + 1e-6)),
(b, b - learning_rate * db / T.sqrt(mb + 1e-6)),
(c, c - learning_rate * dc / T.sqrt(mc + 1e-6)),
(self.mE, mE), (self.mU, mU), (self.mW, mW),
(self.mV, mV), (self.mb, mb), (self.mc, mc)],
allow_input_downcast=True)
def __theano_build__(self):
E, V, U, W, b, c = self.E, self.V, self.U, self.W, self.b, self.c
x = T.ivector('x')
y = T.ivector('y')
def forward_direction_prop_step(x_t, s_t_prev):
#
#
# Word embedding layer
x_e = E[:, x_t]
# GRU layer 1
z_t = T.nnet.hard_sigmoid(U[0].dot(x_e) +
W[0].dot(s_t_prev)) + b[0]
r_t = T.nnet.hard_sigmoid(U[1].dot(x_e) +
W[1].dot(s_t_prev)) + b[1]
c_t = T.tanh(U[2].dot(x_e) + W[2].dot(s_t_prev * r_t) + b[2])
s_t = (T.ones_like(z_t) - z_t) * c_t + z_t * s_t_prev
# directly return the hidden state as intermidate output
return [s_t]
def backward_direction_prop_step(x_t, s_t_prev):
#
#
#
x_e = E[:, x_t]
# GRU layer 2
z_t = T.nnet.hard_sigmoid(U[3].dot(x_e) +
W[3].dot(s_t_prev)) + b[3]
r_t = T.nnet.hard_sigmoid(U[4].dot(x_e) +
W[4].dot(s_t_prev)) + b[4]
c_t = T.tanh(U[5].dot(x_e) + W[5].dot(s_t_prev * r_t) + b[5])
s_t = (T.ones_like(z_t) - z_t) * c_t + z_t * s_t_prev
return [s_t]
def o_step(combined_s_t):
o_t = T.nnet.softmax(V.dot(combined_s_t) + c)[0]
return o_t
# forward direction states
f_s, updates = theano.scan(forward_direction_prop_step,
sequences=x,
truncate_gradient=self.bptt_truncate,
outputs_info=T.zeros(self.hidden_dim))
# backward direction states
b_s, updates = theano.scan(
backward_direction_prop_step,
sequences=x[::-1], # the reverse direction input
truncate_gradient=self.bptt_truncate,
outputs_info=T.zeros(self.hidden_dim))
self.f_s = f_s
self.b_s = b_s
f_b_s = b_s[::-1]
# combine the forward GRU state and backward GRU state together
combined_s = T.concatenate([f_s, b_s[::-1]], axis=1)
# concatenate the hidden state from 2 GRU layer to do the output
o, updates = theano.scan(o_step,
sequences=combined_s,
truncate_gradient=self.bptt_truncate,
outputs_info=None)
prediction = T.argmax(o, axis=1)
o_error = T.sum(T.nnet.categorical_crossentropy(o, y))
cost = o_error
# Gradients
dE = T.grad(cost, E)
dU = T.grad(cost, U)
dW = T.grad(cost, W)
db = T.grad(cost, b)
dV = T.grad(cost, V)
dc = T.grad(cost, c)
# Assign functions
self.predict = theano.function([x], o)
self.predict_class = theano.function([x], prediction)
self.ce_error = theano.function([x, y], cost)
# self.bptt = theano.function([x,y],[dE,dU,dW,db,dV,dc])
# SGD parameters
learning_rate = T.scalar('learning_rate')
decay = T.scalar('decay')
# rmsprop cache updates
mE = decay * self.mE + (1 - decay) * dE**2
mU = decay * self.mU + (1 - decay) * dU**2
mW = decay * self.mW + (1 - decay) * dW**2
mV = decay * self.mV + (1 - decay) * dV**2
mb = decay * self.mb + (1 - decay) * db**2
mc = decay * self.mc + (1 - decay) * dc**2
updates = [(E, E - learning_rate * dE / T.sqrt(mE + 1e-6)),
(U, U - learning_rate * dU / T.sqrt(mU + 1e-6)),
(W, W - learning_rate * dW / T.sqrt(mW + 1e-6)),
(V, V - learning_rate * dV / T.sqrt(mV + 1e-6)),
(b, b - learning_rate * db / T.sqrt(mb + 1e-6)),
(c, c - learning_rate * dc / T.sqrt(mc + 1e-6)),
(self.mE, mE), (self.mU, mU), (self.mW, mW), (self.mV, mV),
(self.mb, mb), (self.mc, mc)]
self.sgd_step = theano.function(
[x, y, learning_rate,
theano.Param(decay, default=0.9)], [],
updates=updates)
def conv3d(signals,
filters,
signals_shape=None,
filters_shape=None,
border_mode='valid'):
"""
Convolve spatio-temporal filters with a movie.
It flips the filters.
Parameters
----------
signals
Timeseries of images whose pixels have color channels.
Shape: [Ns, Ts, C, Hs, Ws].
filters
Spatio-temporal filters.
Shape: [Nf, Tf, C, Hf, Wf].
signals_shape
None or a tuple/list with the shape of signals.
filters_shape
None or a tuple/list with the shape of filters.
border_mode
One of 'valid', 'full' or 'half'.
Notes
-----
Another way to define signals: (batch, time, in channel, row, column)
Another way to define filters: (out channel,time,in channel, row, column)
For the GPU, use nnet.conv3d.
See Also
--------
Someone made a script that shows how to swap the axes between
both 3d convolution implementations in Theano. See the last
`attachment <https://groups.google.com/d/msg/theano-users/1S9_bZgHxVw/0cQR9a4riFUJ>`_
"""
if isinstance(border_mode, str):
border_mode = (border_mode, border_mode, border_mode)
if signals_shape is None:
_signals_shape_5d = signals.shape
else:
_signals_shape_5d = signals_shape
if filters_shape is None:
_filters_shape_5d = filters.shape
else:
_filters_shape_5d = filters_shape
Ns, Ts, C, Hs, Ws = _signals_shape_5d
Nf, Tf, C, Hf, Wf = _filters_shape_5d
_signals_shape_4d = (Ns * Ts, C, Hs, Ws)
_filters_shape_4d = (Nf * Tf, C, Hf, Wf)
if border_mode[1] != border_mode[2]:
raise NotImplementedError('height and width bordermodes must match')
conv2d_signal_shape = _signals_shape_4d
conv2d_filter_shape = _filters_shape_4d
if signals_shape is None:
conv2d_signal_shape = None
if filters_shape is None:
conv2d_filter_shape = None
out_4d = tensor.nnet.conv2d(
signals.reshape(_signals_shape_4d),
filters.reshape(_filters_shape_4d),
input_shape=conv2d_signal_shape,
filter_shape=conv2d_filter_shape,
border_mode=border_mode[1]) # ignoring border_mode[2]
# compute the intended output size
if border_mode[1] == 'valid':
Hout = Hs - Hf + 1
Wout = Ws - Wf + 1
elif border_mode[1] == 'full':
Hout = Hs + Hf - 1
Wout = Ws + Wf - 1
elif border_mode[1] == 'half':
Hout = Hs - (Hf % 2) + 1
Wout = Ws - (Wf % 2) + 1
elif border_mode[1] == 'same':
raise NotImplementedError()
else:
raise ValueError('invalid border mode', border_mode[1])
# reshape the temporary output to restore its original size
out_tmp = out_4d.reshape((Ns, Ts, Nf, Tf, Hout, Wout))
# now sum out along the Tf to get the output
# but we have to sum on a diagonal through the Tf and Ts submatrix.
if Tf == 1:
# for Tf==1, no sum along Tf, the Ts-axis of the output is unchanged!
out_5d = out_tmp.reshape((Ns, Ts, Nf, Hout, Wout))
else:
# for some types of convolution, pad out_tmp with zeros
if border_mode[0] == 'valid':
Tpad = 0
elif border_mode[0] == 'full':
Tpad = Tf - 1
elif border_mode[0] == 'half':
Tpad = Tf // 2
elif border_mode[0] == 'same':
raise NotImplementedError()
else:
raise ValueError('invalid border mode', border_mode[0])
if Tpad == 0:
out_5d = diagonal_subtensor(out_tmp, 1, 3).sum(axis=3)
else:
# pad out_tmp with zeros before summing over the diagonal
out_tmp_padded = tensor.zeros(dtype=out_tmp.dtype,
shape=(Ns, Ts + 2 * Tpad, Nf, Tf,
Hout, Wout))
out_tmp_padded = tensor.set_subtensor(
out_tmp_padded[:, Tpad:(Ts + Tpad), :, :, :, :], out_tmp)
out_5d = diagonal_subtensor(out_tmp_padded, 1, 3).sum(axis=3)
return out_5d
def compute_landmarks_helper(self, moms, init_landmarks):
moms = T.reshape(moms[:136], (68, 2)) # 68 * 2
init_landmarks = T.reshape(init_landmarks[:136], (68, 2))
mask = T.zeros((68, 2))
mask = T.set_subtensor(mask[65:68, :], np.ones((3, 2)))
initLandmarks_aftmas = init_landmarks * mask
moms_aftmas = moms * mask
dp = T.zeros((68, 2))
dp1 = T.zeros((68, 2))
initLandmarks_loca1 = T.alloc(initLandmarks_aftmas[65, :], 68, 2)
initLandmarks_loca1_aftmas = initLandmarks_loca1 * mask
initLandmarks_loca2 = T.alloc(initLandmarks_aftmas[66, :], 68, 2)
initLandmarks_loca2_aftmas = initLandmarks_loca2 * mask
initLandmarks_loca3 = T.alloc(initLandmarks_aftmas[67, :], 68, 2)
initLandmarks_loca3_aftmas = initLandmarks_loca3 * mask
weight1 = T.zeros((68, 2))
weight1_val = T.exp(- T.sum((initLandmarks_loca1_aftmas - initLandmarks_aftmas) ** 2, axis=1) / self.sigmaV2)
weight1 = T.set_subtensor(weight1[:, 0], weight1_val)
weight1 = T.set_subtensor(weight1[:, 1], weight1_val)
val1 = T.sum(weight1 * moms_aftmas, axis=0)
dp = T.set_subtensor(dp[65, :], val1)
weight2 = T.zeros((68, 2))
weight2_val = T.exp(- T.sum((initLandmarks_loca2_aftmas - initLandmarks_aftmas) ** 2, axis=1) / self.sigmaV2)
weight2 = T.set_subtensor(weight2[:, 0], weight2_val)
weight2 = T.set_subtensor(weight2[:, 1], weight2_val)
val2 = T.sum(weight2 * moms_aftmas, axis=0)
dp = T.set_subtensor(dp[66, :], val2)
weight3 = T.zeros((68, 2))
weight3_val = T.exp(- T.sum((initLandmarks_loca3_aftmas - initLandmarks_aftmas) ** 2, axis=1) / self.sigmaV2)
weight3 = T.set_subtensor(weight3[:, 0], weight3_val)
weight3 = T.set_subtensor(weight3[:, 1], weight3_val)
val3 = T.sum(weight3 * moms_aftmas, axis=0)
dp = T.set_subtensor(dp[67, :], val3)
deformedShape = initLandmarks_aftmas + (dp * self.tau)
deformedShape_loca1 = T.alloc(deformedShape[65, :], 68, 2)
deformedShape_loca2 = T.alloc(deformedShape[66, :], 68, 2)
deformedShape_loca3 = T.alloc(deformedShape[67, :], 68, 2)
weight11 = T.zeros((68, 2))
weight11_val = T.exp(- T.sum((deformedShape_loca1 - deformedShape) ** 2, axis=1) / self.sigmaV2)
weight11 = T.set_subtensor(weight11[:, 0], weight11_val)
weight11 = T.set_subtensor(weight11[:, 1], weight11_val)
val11 = T.sum(weight11 * moms_aftmas, axis=0)
dp1 = T.set_subtensor(dp1[65, :], val11)
weight22 = T.zeros((68, 2))
weight22_val = T.exp(- T.sum((deformedShape_loca2 - deformedShape) ** 2, axis=1) / self.sigmaV2)
weight22 = T.set_subtensor(weight22[:, 0], weight22_val)
weight22 = T.set_subtensor(weight22[:, 1], weight22_val)
val22 = T.sum(weight22 * moms_aftmas, axis=0)
dp1 = T.set_subtensor(dp1[66, :], val22)
weight33 = T.zeros((68, 2))
weight33_val = T.exp(- T.sum((deformedShape_loca3 - deformedShape) ** 2, axis=1) / self.sigmaV2)
weight33 = T.set_subtensor(weight33[:, 0], weight33_val)
weight33 = T.set_subtensor(weight33[:, 1], weight33_val)
val33 = T.sum(weight33 * moms_aftmas, axis=0)
dp1 = T.set_subtensor(dp1[67, :], val33)
output = (deformedShape + dp1 * self.tau).flatten()
return output
def __init__(self, x, n_in, n_hidden, n_out, activation='tanh', order=1):
self.x = x
self.n_in = n_in
self.n_hidden = n_hidden
self.n_out = n_out
self.order = order
if activation.lower() == 'tanh':
act = tanh
elif activation.lower() == 'relu':
act = relu
elif activation.lower() == 'sigmoid':
act = sigmoid
elif activation.lower() == 'linear':
act = lambda x: x
def _slice(x, n):
return x[:, n * self.n_hidden:(n + 1) * self.n_hidden]
# initialize weights
def ortho_weight(ndim, rng=rng):
W = rng.randn(ndim, ndim)
u, s, v = numpy.linalg.svd(W)
return u.astype(theano.config.floatX)
def uniform_weight(n1, n2, rng=rng):
limit = numpy.sqrt(6. / (n1 + n2))
return rng.uniform(low=-limit, high=limit,
size=(n1, n2)).astype(theano.config.floatX)
def const_bias(n, value=0):
return value * numpy.ones((n, ), dtype=theano.config.floatX)
if self.order == 0:
# no multiplicative terms
self.Wx = theano.shared(uniform_weight(n_in, n_hidden),
borrow=True)
self.Wh = theano.shared(ortho_weight(n_hidden), borrow=True)
self.bh = theano.shared(const_bias(n_hidden, 0), borrow=True)
self.Wy = theano.shared(uniform_weight(n_hidden, n_out),
borrow=True)
self.by = theano.shared(const_bias(n_out, 0), borrow=True)
self.am = []
self.ax = []
self.ah = []
self.params = [self.Wx, self.Wh, self.bh, self.Wy, self.by]
self.W = [self.Wx, self.Wh, self.Wy]
self.L1 = numpy.sum([abs(w).sum() for w in self.W])
self.L2 = numpy.sum([(w**2).sum() for w in self.W])
# forward function
def forward(x_t, h_tm1, Wx, Wh, bh, am, ax, ah, Wy, by):
preact = T.dot(x_t, Wx) + T.dot(h_tm1, Wh) + bh
h_t = act(preact)
y_t = softmax(T.dot(h_t, Wy) + by)
return h_t, y_t, preact
else:
self.Wx = theano.shared(numpy.concatenate(
[uniform_weight(n_in, n_hidden) for i in range(order)],
axis=1),
borrow=True)
self.Wh = theano.shared(numpy.concatenate(
[ortho_weight(n_hidden) for i in range(order)], axis=1),
borrow=True)
self.am = theano.shared(numpy.concatenate(
[const_bias(n_hidden, 2) for i in range(order)], axis=0),
borrow=True)
self.ax = theano.shared(numpy.concatenate(
[const_bias(n_hidden, 0.5) for i in range(order)], axis=0),
borrow=True)
self.ah = theano.shared(numpy.concatenate(
[const_bias(n_hidden, 0.5) for i in range(order)], axis=0),
borrow=True)
self.bh = theano.shared(numpy.concatenate(
[const_bias(n_hidden, 0) for i in range(order)], axis=0),
borrow=True)
self.Wy = theano.shared(uniform_weight(n_hidden, n_out),
borrow=True)
self.by = theano.shared(const_bias(n_out, 0), borrow=True)
self.params = [
self.Wx, self.Wh, self.am, self.ax, self.ah, self.bh, self.Wy,
self.by
]
self.W = [self.Wx, self.Wh, self.Wy]
self.L1 = numpy.sum([abs(w).sum() for w in self.W])
self.L2 = numpy.sum([(w**2).sum() for w in self.W])
# forward function
def forward(x_t, h_tm1, Wx, Wh, bh, am, ax, ah, Wy, by):
h_t = 1
preact = am*T.dot(x_t,Wx)*T.dot(h_tm1,Wh) \
+ax*T.dot(x_t,Wx) \
+ah*T.dot(h_tm1,Wh) \
+bh
for i in range(self.order):
h_t = h_t * act(_slice(preact, i))
y_t = softmax(T.dot(h_t, Wy) + by)
return h_t, y_t, preact
h0 = T.alloc(T.zeros((self.n_hidden, ), dtype=theano.config.floatX),
x.shape[0], self.n_hidden)
([h, y, p], updates) = theano.scan(
fn=forward,
sequences=x.dimshuffle([1, 0, 2]),
outputs_info=[dict(initial=h0, taps=[-1]), None, None],
non_sequences=[
self.Wx, self.Wh, self.bh, self.am, self.ax, self.ah, self.Wy,
self.by
])
self.output = y
self.preact = p
self.pred = T.argmax(self.output, axis=1)
def MultiOutput_Bayesian_Calibration(n_y,DataComp,DataField,DataPred,output_folder):
# This is data preprocessing part
n = np.shape(DataField)[0] # number of measured data
m = np.shape(DataComp)[0] # number of simulation data
p = np.shape(DataField)[1] - n_y # number of input x
q = np.shape(DataComp)[1] - p - n_y # number of calibration parameters t
xc = DataComp[:,n_y:] # simulation input x + calibration parameters t
xf = DataField[:,n_y:] # observed input
yc = DataComp[:,:n_y] # simulation output
yf = DataField[:,:n_y] # observed output
x_pred = DataPred[:,n_y:] # design points for predictions
y_true = DataPred[:,:n_y] # true measured value for design points for predictions
n_pred = np.shape(x_pred)[0] # number of predictions
N = n+m+n_pred
# Put points xc, xf, and x_pred on [0,1]
for i in range(p):
x_min = min(min(xc[:,i]),min(xf[:,i]))
x_max = max(max(xc[:,i]),max(xf[:,i]))
xc[:,i] = (xc[:,i]-x_min)/(x_max-x_min)
xf[:,i] = (xf[:,i]-x_min)/(x_max-x_min)
x_pred[:,i] = (x_pred[:,i]-x_min)/(x_max-x_min)
# Put calibration parameters t on domain [0,1]
for i in range(p,(p+q)):
t_min = min(xc[:,i])
t_max = max(xc[:,i])
xc[:,i] = (xc[:,i]-t_min)/(t_max-t_min)
# store mean and std of yc for future scale back use
yc_mean = np.zeros(n_y)
yc_sd = np.zeros(n_y)
# standardization of output yf and yc
for i in range(n_y):
yc_mean[i] = np.mean(yc[:,i])
yc_sd[i] = np.std(yc[:,i])
yc[:,i] = (yc[:,i]-yc_mean[i])/yc_sd[i]
yf[:,i] = (yf[:,i]-yc_mean[i])/yc_sd[i]
# This is modeling part
with pm.Model() as model:
# Claim prior part
eta1 = pm.HalfCauchy("eta1", beta=5) # for eta of gaussian process
lengthscale = pm.Gamma("lengthscale", alpha=2, beta=1, shape=(p+q)) # for lengthscale of gaussian process
tf = pm.Beta("tf", alpha=2, beta=2, shape=q) # for calibration parameters
sigma1 = pm.HalfCauchy('sigma1', beta=5) # for noise
y_pred = pm.Normal('y_pred', 0, 1.5, shape=(n_pred,n_y)) # for y prediction
# Setup prior of right cholesky matrix
sd_dist = pm.HalfCauchy.dist(beta=2.5, shape=n_y)
colchol_packed = pm.LKJCholeskyCov('colcholpacked', n=n_y, eta=2,sd_dist=sd_dist)
colchol = pm.expand_packed_triangular(n_y, colchol_packed)
# Concate data into a big matrix[[xf tf], [xc tc], [x_pred tf]]
xf1 = tt.concatenate([xf, tt.fill(tt.zeros([n,q]), tf)], axis = 1)
x_pred1 = tt.concatenate([x_pred, tt.fill(tt.zeros([n_pred,q]), tf)], axis = 1)
X = tt.concatenate([xf1, xc, x_pred1], axis = 0)
# Concate data into a big matrix[[yf], [yc], [y_pred]]
y = tt.concatenate([yf, yc, y_pred], axis = 0)
# Covariance funciton of gaussian process
cov_z = eta1**2 * pm.gp.cov.ExpQuad((p+q), ls=lengthscale)
# Gaussian process with covariance funciton of cov_z
gp = MultiMarginal(cov_func = cov_z)
# Bayesian inference
matrix_shape = [n+m+n_pred,n_y]
outcome = gp.marginal_likelihood("outcome", X=X, y=y, colchol=colchol, noise=sigma1, matrix_shape=matrix_shape)
trace = pm.sample(250,cores=1)
# This part is for data collection and visualization
pm.summary(trace).to_csv(output_folder + '/trace_summary.csv')
print(pm.summary(trace))
name_columns = []
n_columns = n_pred
for i in range(n_columns):
for j in range(n_y):
name_columns.append('y'+str(j+1)+'_pred'+str(i+1))
y_prediction = pd.DataFrame(np.array(trace['y_pred']).reshape(500,n_pred*n_y),columns=name_columns)
#Draw Picture of cvrmse_dist and calculate index
for i in range(n_y):
index = list(range(0+i,n_pred*n_y+i,n_y))
y_prediction1 = pd.DataFrame(y_prediction.iloc[:,index])
y_prediction1 = y_prediction1*yc_sd[i]+yc_mean[i] # Scale y_prediction back
y_prediction1.to_csv(output_folder + '/y_pred'+str(i+1)+'.csv') # Store y_prediction
# Calculate the distribution of cvrmse
cvrmse = 100*np.sqrt(np.sum(np.square(y_prediction1-y_true[:,i]),axis=1)/n_pred)/np.mean(y_true[:,i])
# Calculate the index and store it into csv
index_cal(y_prediction1,y_true[:,i]).to_csv(output_folder + '/index'+str(i+1)+'.csv')
# Draw pictrue of cvrmse distribution of each y
plt.subplot(n_y, 1, i+1)
plt.hist(cvrmse)
plt.savefig(output_folder + '/cvrmse_dist.pdf')
plt.close()
#Draw Picture of Prediction_Plot
for i in range(n_y):
index = list(range(0+i,n_pred*n_y+i,n_y))
y_prediction_mean = np.array(pm.summary(trace)['mean'][index])*yc_sd[i]+yc_mean[i]
y_prediction_975 = np.array(pm.summary(trace)['hpd_97.5'][index])*yc_sd[i]+yc_mean[i]
y_prediction_025 = np.array(pm.summary(trace)['hpd_2.5'][index])*yc_sd[i]+yc_mean[i]
plt.subplot(n_y, 1, i+1)
# estimated probability
plt.scatter(x=range(n_pred), y=y_prediction_mean)
# error bars on the estimate
plt.vlines(range(n_pred), ymin=y_prediction_025, ymax=y_prediction_975)
# actual outcomes
plt.scatter(x=range(n_pred),
y=y_true[:,i], marker='x')
plt.xlabel('predictor')
plt.ylabel('outcome')
# This is just to print original cvrmse to test whether outcome good
if i == 0:
cvrmse = 100*np.sqrt(np.sum(np.square(y_prediction_mean-y_true[:,0]))/len(y_prediction_mean-y_true[:,0]))/np.mean(y_true[:,0])
print(cvrmse)
plt.savefig(output_folder + '/Prediction_Plot.pdf')
plt.close()
def test_convolutional_layer():
batch_size=2
x = T.tensor4();
y = T.ivector()
V = 200
layer_conv = Convolutional(filter_size=(5,5),num_filters=V,
name="toto",
weights_init=IsotropicGaussian(0.01),
biases_init=Constant(0.0))
# try with no bias
activation = Rectifier()
pool = MaxPooling(pooling_size=(2,2))
convnet = ConvolutionalSequence([layer_conv, activation, pool], num_channels=15,
image_size=(10,10),
name="conv_section")
convnet.push_allocation_config()
convnet.initialize()
output=convnet.apply(x)
batch_size=output.shape[0]
output_dim=np.prod(convnet.get_dim('output'))
result_conv = output.reshape((batch_size, output_dim))
mlp=MLP(activations=[Rectifier().apply], dims=[output_dim, 10],
weights_init=IsotropicGaussian(0.01),
biases_init=Constant(0.0))
mlp.initialize()
output=mlp.apply(result_conv)
cost = T.mean(Softmax().categorical_cross_entropy(y.flatten(), output))
cg = ComputationGraph(cost)
W = VariableFilter(roles=[WEIGHT])(cg.variables)
B = VariableFilter(roles=[BIAS])(cg.variables)
W = W[-1]; b = B[-1]
print W.shape.eval()
print b.shape.eval()
import pdb
pdb.set_trace()
inputs_conv = VariableFilter(roles=[INPUT], bricks=[Convolutional])(cg)
outputs_conv = VariableFilter(roles=[OUTPUT], bricks=[Convolutional])(cg)
var_input=inputs_conv[0]
var_output=outputs_conv[0]
[d_W,d_S,d_b] = T.grad(cost, [W, var_output, b])
import pdb
pdb.set_trace()
w_shape = W.shape.eval()
d_W = d_W.reshape((w_shape[0], w_shape[1]*w_shape[2]*w_shape[3]))
d_b = T.zeros((w_shape[0],6*6))
#d_b = d_b.reshape((w_shape[0], 8*8))
d_p = T.concatenate([d_W, d_b], axis=1)
d_S = d_S.dimshuffle((1, 0, 2, 3)).reshape((w_shape[0], batch_size, 6*6)).reshape((w_shape[0], batch_size*6*6))
#d_S = d_S.reshape((2,200, 64))
#x_value=1e3*np.random.ranf((1,15,10,10))
x_value = 1e3*np.random.ranf((2,15, 10, 10))
f = theano.function([x,y], [var_input, d_S, d_W], allow_input_downcast=True, on_unused_input='ignore')
A, B, C= f(x_value, [5, 5])
print np.mean(B)
return
E_A = expansion_op(A, (2, 15, 10, 10), (5,5))
print E_A.shape
E_A = E_A.reshape((2*36, C.shape[1]))
print E_A.shape
tmp = C - np.dot(B, E_A)
print lin.norm(tmp, 'fro')
def embedder(x, all_embeddings):
all_embeddings = T.concatenate(
[all_embeddings, T.zeros((1, all_embeddings.shape[1]))], axis=0)
return all_embeddings[x]
def __init__(self, u, model=None):
add_citations_to_model(self.__citations__, model=model)
self.u = tt.as_tensor_variable(u)
u_ext = tt.concatenate([-1 + tt.zeros(1, dtype=self.u.dtype), self.u])
self.c = get_cl(u_ext)
self.c_norm = self.c / (np.pi * (self.c[0] + 2 * self.c[1] / 3))
def jacobian_det(self, x):
return tt.zeros(x.shape)
def cal_decoder_step(self, decoder_val):
'''
Calculate the weight ratios in decoder
:type decoder_val: class
:param decoder_val: the class which stores the intermediate variables in decoder
:returns: R_h_h, R_h_x, R_h_y, R_outenergy_2_h, R_outenergy_2_x, R_outenergy_2_y_before are theano variables, weight ratios in decoder.
'''
y = decoder_val.y[self.idx].dimshuffle(0, 'x')
R_state_in_y = (
y * self.dec_input_emb + self.dec_input_emb_offset[self.idx]) / (
decoder_val.state_in[self.idx] + self.ep *
TT.sgn(decoder_val.state_in[self.idx])).dimshuffle('x', 0)
R_state_in_y = R_state_in_y.dimshuffle(1, 0)
R_reset_in_y = y * self.dec_reset_emb / (
decoder_val.reset_in[self.idx] + self.ep *
TT.sgn(decoder_val.reset_in[self.idx])).dimshuffle('x', 0)
R_reset_in_y = R_reset_in_y.dimshuffle(1, 0)
R_gate_in_y = y * self.dec_gate_emb / (
decoder_val.gate_in[self.idx] + self.ep *
TT.sgn(decoder_val.gate_in[self.idx])).dimshuffle('x', 0)
R_gate_in_y = R_gate_in_y.dimshuffle(1, 0)
c = decoder_val.c[self.idx].dimshuffle(0, 'x')
R_gate_cin = c * self.dec_gate_context / (
decoder_val.gate_cin[self.idx] + self.ep *
TT.sgn(decoder_val.gate_cin[self.idx])).dimshuffle('x', 0)
R_gate_cin = R_gate_cin.dimshuffle(1, 0)
R_reset_cin = c * self.dec_reset_context / (
decoder_val.reset_cin[self.idx] + self.ep *
TT.sgn(decoder_val.reset_cin[self.idx])).dimshuffle('x', 0)
R_reset_cin = R_reset_cin.dimshuffle(1, 0)
R_state_cin = c * self.dec_input_context / (
decoder_val.state_cin[self.idx] + self.ep *
TT.sgn(decoder_val.state_cin[self.idx])).dimshuffle('x', 0)
R_state_cin = R_state_cin.dimshuffle(1, 0)
R_gate_cin_x = TT.dot(R_gate_cin, self.R_c_x).dimshuffle(1, 0, 2)
R_reset_cin_x = TT.dot(R_reset_cin, self.R_c_x)
R_reset_cin_x = R_reset_cin_x.dimshuffle(1, 0, 2)
R_state_cin_x = TT.dot(R_state_cin, self.R_c_x)
R_state_cin_x = R_state_cin_x.dimshuffle(1, 0, 2)
h_before = decoder_val.h_before[self.idx].dimshuffle(0, 'x')
R_gate_h = h_before * self.dec_gate_hidden / (
decoder_val.gate[self.idx] +
self.ep * TT.sgn(decoder_val.gate[self.idx])).dimshuffle('x', 0)
R_gate_h = R_gate_h.dimshuffle(1, 0)
R_reset_h = h_before * self.dec_reset_hidden / (
decoder_val.reset[self.idx] +
self.ep * TT.sgn(decoder_val.reset[self.idx])).dimshuffle('x', 0)
R_reset_h = R_reset_h.dimshuffle(1, 0)
R_gate_y = R_gate_in_y * (
decoder_val.gate_in[self.idx] /
(decoder_val.gate[self.idx] +
self.ep * TT.sgn(decoder_val.gate[self.idx]))).dimshuffle(0, 'x')
R_reset_y = R_reset_in_y * (decoder_val.reset_in[self.idx] / (
decoder_val.reset[self.idx] +
self.ep * TT.sgn(decoder_val.reset[self.idx]))).dimshuffle(0, 'x')
R_gate = (decoder_val.gate_cin[self.idx] /
(decoder_val.gate[self.idx] +
self.ep * TT.sgn(decoder_val.gate[self.idx]))).dimshuffle(
'x', 0, 'x')
R_gate_x = R_gate * R_gate_cin_x
R_reset = (decoder_val.reset_cin[self.idx] /
(decoder_val.reset[self.idx] +
self.ep * TT.sgn(decoder_val.reset[self.idx]))).dimshuffle(
'x', 0, 'x')
R_reset_x = R_reset * R_reset_cin_x
R_reseted_h = R_reset_h * self.weight + TT.eye(self.dim,
self.dim) * self.weight
R_reseted_y = R_reset_y * self.weight
R_reseted_x = R_reset_x * self.weight
R_state_x = R_state_cin_x * (
decoder_val.state_cin[self.idx] /
(decoder_val.state[self.idx] + self.ep *
TT.sgn(decoder_val.state[self.idx]))).dimshuffle('x', 0, 'x')
R_state_y = R_state_in_y * (decoder_val.state_in[self.idx] / (
decoder_val.state[self.idx] +
self.ep * TT.sgn(decoder_val.state[self.idx]))).dimshuffle(0, 'x')
reseted = decoder_val.reseted[self.idx].dimshuffle(0, 'x')
R_state_reseted = reseted * self.dec_input_hidden[self.idx] / (
decoder_val.state[self.idx] +
self.ep * TT.sgn(decoder_val.state[self.idx])).dimshuffle(0, 'x')
R_state_reseted = R_state_reseted.dimshuffle(1, 0)
R_state_h = TT.dot(R_state_reseted, R_reseted_h)
R_state_x += TT.dot(R_state_reseted, R_reseted_x).dimshuffle(1, 0, 2)
R_state_y = TT.dot(R_state_reseted, R_reseted_y)
R_h = (decoder_val.gate[self.idx] * decoder_val.state[self.idx] /
(decoder_val.h[self.idx] +
self.ep * TT.sgn(decoder_val.h[self.idx]))).dimshuffle(
0, 'x') * self.weight
R_h_h = R_gate_h * R_h + R_state_h * R_h
R_h2 = ((1 - decoder_val.gate[self.idx]) *
decoder_val.h_before[self.idx] /
(decoder_val.h[self.idx] +
self.ep * TT.sgn(decoder_val.h[self.idx]))).dimshuffle(
0, 'x')
R_h_h += TT.identity_like(R_h_h) * R_h2
R_h_y = R_gate_y * R_h + R_state_y * R_h
R_h = (decoder_val.gate[self.idx] * decoder_val.state[self.idx] /
(decoder_val.h[self.idx] +
self.ep * TT.sgn(decoder_val.h[self.idx]))).dimshuffle(
'x', 0, 'x') * self.weight
R_h_x = R_gate_x * R_h + R_state_x * R_h
R_readout_c = c * self.dec_readout_context / (
decoder_val.readout[self.idx] + self.ep *
TT.sgn(decoder_val.readout[self.idx])).dimshuffle('x', 0)
R_readout_c = R_readout_c.dimshuffle(1, 0)
R_readout_x = TT.dot(R_readout_c, self.R_c_x).dimshuffle(1, 0, 2)
R_readout_h = h_before * self.dec_readout_hidden / (
decoder_val.readout[self.idx] + self.ep *
TT.sgn(decoder_val.readout[self.idx])).dimshuffle('x', 0)
R_readout_h = R_readout_h.dimshuffle(1, 0)
y_before = decoder_val.y_before[self.idx].dimshuffle(0, 'x')
R_readout_y_before = y_before * self.dec_readout_emb / (
decoder_val.readout[self.idx] + self.ep *
TT.sgn(decoder_val.readout[self.idx])).dimshuffle('x', 0)
R_readout_y_before = R_readout_y_before.dimshuffle(1, 0)
dim1 = decoder_val.maxout[self.idx].shape[0]
maxout = decoder_val.maxout[self.idx].reshape([dim1 / 2, 2])
maxout = TT.argmax(maxout, axis=1)
maxout = maxout.reshape([dim1 / 2])
L = TT.arange(dim1 / 2)
maxout = maxout + L * 2 + L * dim1
R_maxout = TT.zeros((self.dim * self.dim / 2))
R_maxout = TT.set_subtensor(R_maxout[maxout.flatten()], 1.0)
R_maxout = R_maxout.reshape([self.dim / 2, self.dim])
R_maxout_y_before = TT.dot(R_maxout, R_readout_y_before)
R_maxout_h = TT.dot(R_maxout, R_readout_h)
R_maxout_x = TT.dot(R_maxout, R_readout_x).dimshuffle(1, 0, 2)
maxout = decoder_val.maxout[self.idx].dimshuffle(0, 'x')
R_outenergy1_maxout = maxout * self.dec_probs_emb / (
decoder_val.outenergy_1[self.idx] + self.ep *
TT.sgn(decoder_val.outenergy_1[self.idx])).dimshuffle('x', 0)
R_outenergy1_maxout = R_outenergy1_maxout.dimshuffle(1, 0)
R_outenergy1_y_before = TT.dot(R_outenergy1_maxout, R_maxout_y_before)
R_outenergy1_h = TT.dot(R_outenergy1_maxout, R_maxout_h)
R_outenergy1_x = TT.dot(R_outenergy1_maxout,
R_maxout_x).dimshuffle(1, 0, 2)
probs = self.dec_probs.dimshuffle(
1, 0)[decoder_val.y_idx[self.idx]].dimshuffle(0, 'x')
outenergy_1 = decoder_val.outenergy_1[self.idx].dimshuffle(0, 'x')
idx = decoder_val.y_idx[self.idx]
outenergy_2 = (decoder_val.outenergy_2[self.idx][idx])
R_outenergy_2 = outenergy_1 * probs / (outenergy_2 +
self.ep * outenergy_2)
R_outenergy_2 = R_outenergy_2.dimshuffle(1, 0)
R_outenergy_2_y_before = TT.dot(R_outenergy_2, R_outenergy1_y_before)
R_outenergy_2_h = TT.dot(R_outenergy_2, R_outenergy1_h)
R_outenergy_2_x = TT.dot(R_outenergy_2,
R_outenergy1_x).dimshuffle(1, 0, 2)
return R_h_h, R_h_x, R_h_y, R_outenergy_2_h, R_outenergy_2_x, R_outenergy_2_y_before
def conv3d(x,
kernel,
strides=(1, 1, 1),
border_mode='valid',
dim_ordering='th',
volume_shape=None,
filter_shape=None):
'''
Run on cuDNN if available.
border_mode: string, "same" or "valid".
'''
if dim_ordering not in {'th', 'tf'}:
raise Exception('Unknown dim_ordering ' + str(dim_ordering))
if border_mode not in {'same', 'valid'}:
raise Exception('Invalid border mode: ' + str(border_mode))
if dim_ordering == 'tf':
# TF uses the last dimension as channel dimension,
# instead of the 2nd one.
# TH input shape: (samples, input_depth, conv_dim1, conv_dim2, conv_dim3)
# TF input shape: (samples, conv_dim1, conv_dim2, conv_dim3, input_depth)
# TH kernel shape: (out_depth, input_depth, kernel_dim1, kernel_dim2, kernel_dim3)
# TF kernel shape: (kernel_dim1, kernel_dim2, kernel_dim3, input_depth, out_depth)
x = x.dimshuffle((0, 4, 1, 2, 3))
kernel = kernel.dimshuffle((4, 3, 0, 1, 2))
if volume_shape:
volume_shape = (volume_shape[0], volume_shape[4], volume_shape[1],
volume_shape[2], volume_shape[3])
if filter_shape:
filter_shape = (filter_shape[4], filter_shape[3], filter_shape[0],
filter_shape[1], filter_shape[2])
if border_mode == 'same':
assert (strides == (1, 1, 1))
pad_dim1 = (kernel.shape[2] - 1)
pad_dim2 = (kernel.shape[3] - 1)
pad_dim3 = (kernel.shape[4] - 1)
output_shape = (x.shape[0], x.shape[1], x.shape[2] + pad_dim1,
x.shape[3] + pad_dim2, x.shape[4] + pad_dim3)
output = T.zeros(output_shape)
indices = (slice(None), slice(None),
slice(pad_dim1 // 2, x.shape[2] + pad_dim1 // 2),
slice(pad_dim2 // 2, x.shape[3] + pad_dim2 // 2),
slice(pad_dim3 // 2, x.shape[4] + pad_dim3 // 2))
x = T.set_subtensor(output[indices], x)
border_mode = 'valid'
border_mode_3d = (border_mode, border_mode, border_mode)
conv_out = conv3d2d.conv3d(signals=x.dimshuffle(0, 2, 1, 3, 4),
filters=kernel.dimshuffle(0, 2, 1, 3, 4),
border_mode=border_mode_3d)
conv_out = conv_out.dimshuffle(0, 2, 1, 3, 4)
# support strides by manually slicing the output
if strides != (1, 1, 1):
conv_out = conv_out[:, :, ::strides[0], ::strides[1], ::strides[2]]
if dim_ordering == 'tf':
conv_out = conv_out.dimshuffle((0, 2, 3, 4, 1))
return conv_out
def theano_one_hot(idx, n):
z = T.zeros((idx.shape[0], n))
one_hot = T.set_subtensor(z[T.arange(idx.shape[0]), idx], 1)
return one_hot
def construct_graph(self, args, x, length, popstats=None):
p = self.parameters
# use `symlength` where we need to be able to adapt to longer sequences
# than the ones we trained on
symlength = x.shape[0]
t = T.cast(T.arange(symlength), "int16")
long_sequence_is_long = T.ge(
T.cast(T.arange(symlength), theano.config.floatX), length)
batch_size = x.shape[1]
dummy_states = dict(h=T.zeros(
(symlength, batch_size, args.num_hidden)),
c=T.zeros(
(symlength, batch_size, args.num_hidden)))
output_names = "h c atilde btilde".split()
for key in "abc":
for stat in "mean var".split():
output_names.append("%s_%s" % (key, stat))
def stepfn(t, long_sequence_is_long, x, dummy_h, dummy_c, h, c):
# population statistics are sequences, but we use them
# like a non-sequence and index it ourselves. this allows
# us to generalize to longer sequences, in which case we
# repeat the last element.
popstats_by_key = dict()
for key in "abc":
popstats_by_key[key] = dict()
for stat in "mean var".split():
if not args.baseline and args.use_population_statistics:
popstat = popstats["%s_%s" % (key, stat)]
# pluck the appropriate population statistic for this
# time step out of the sequence, or take the last
# element if we've gone beyond the training length.
# if `long_sequence_is_long` then `t` may be unreliable
# as it will overflow for looong sequences.
popstat = theano.ifelse.ifelse(long_sequence_is_long,
popstat[-1], popstat[t])
else:
popstat = None
popstats_by_key[key][stat] = popstat
atilde, btilde = T.dot(h, p.Wa), T.dot(x, p.Wx)
a_normal, a_mean, a_var = self.bn_a.construct_graph(
atilde, baseline=args.baseline, **popstats_by_key["a"])
b_normal, b_mean, b_var = self.bn_b.construct_graph(
btilde, baseline=args.baseline, **popstats_by_key["b"])
ab = a_normal + b_normal
g, f, i, o = [
fn(ab[:, j * args.num_hidden:(j + 1) * args.num_hidden])
for j, fn in enumerate([self.activation] +
3 * [T.nnet.sigmoid])
]
c = dummy_c + f * c + i * g
c_normal, c_mean, c_var = self.bn_c.construct_graph(
c, baseline=args.baseline, **popstats_by_key["c"])
h = dummy_h + o * self.activation(c_normal)
return [locals()[name] for name in output_names]
sequences = [
t, long_sequence_is_long, x, dummy_states["h"], dummy_states["c"]
]
outputs_info = [
T.repeat(p.h0[None, :], batch_size, axis=0),
T.repeat(p.c0[None, :], batch_size, axis=0),
]
outputs_info.extend([None] * (len(output_names) - len(outputs_info)))
outputs, updates = theano.scan(stepfn,
sequences=sequences,
outputs_info=outputs_info)
outputs = dict(zip(output_names, outputs))
if not args.baseline and not args.use_population_statistics:
# prepare population statistic estimation
popstats = dict()
alpha = 0.05
for key, size in zip(
"abc",
[4 * args.num_hidden, 4 * args.num_hidden, args.num_hidden]):
for stat, init in zip("mean var".split(), [0, 1]):
name = "%s_%s" % (key, stat)
popstats[name] = theano.shared(init + np.zeros(
(
length,
size,
), dtype=theano.config.floatX),
name=name)
popstats[name].tag.estimand = outputs[name]
updates[popstats[name]] = (alpha * outputs[name] +
(1 - alpha) * popstats[name])
return outputs, updates, dummy_states, popstats
def jacobian_det(self, x):
y = tt.zeros(x.shape)
return tt.sum(y, axis=-1)
