def build_graph(self):
assert tf.test.is_gpu_available()
image_raw = tf.constant(self.image, tf.float32)
noise = tf.get_variable(
'noise',
shape=[BATCH_SIZE, 28, 28],
initializer=tf.random_normal_initializer(stddev=0.01))
image = tf.add(image_raw, noise, name='image')
image = tf.clip_by_value(image, -1e-5, 1 + 1e-5)
noise_show = tf.concat([
tf.concat([noise[i * N + j] for j in range(N)], axis=1)
for i in range(N)
],
axis=0,
name='noise_show')
image_show = tf.concat([
tf.concat([image[i * N + j] for j in range(N)], axis=1)
for i in range(N)
],
axis=0,
name='image_show')
l = tf.expand_dims(image, 3)
l = l * 2 - 1 # center the pixels values at zero
l = Conv2D('conv1', l, 32, 3, activation=tf.nn.relu)
l = Conv2D('conv2', l, 64, 3, activation=tf.nn.relu)
l = MaxPooling('pool2', l, 2)
# l = Dropout(l, keep_prob=0.75)
l = FullyConnected('fc1', l, 128)
l = tf.nn.relu(l)
# l = Dropout(l, keep_prob=0.5)
logits = FullyConnected('fc2', l, 10)
tf.argmax(logits, 1, name='pred_label')
cost = tf.nn.sparse_softmax_cross_entropy_with_logits(
logits=logits, labels=self.label)
cost = tf.reduce_mean(cost, name='cross_entropy_loss')
add_tensor_summary(cost, ['scalar'])
# l1_cost = regularize_cost('noise', tf.contrib.layers.l1_regularizer(1e-2))
l2_cost = regularize_cost('noise',
tf.contrib.layers.l2_regularizer(1e-2))
add_tensor_summary(l2_cost, ['scalar'])
add_tensor_summary(
tf.div(tf.reduce_sum(tf.abs(noise)), BATCH_SIZE, name='L1Norm'),
['scalar'])
add_tensor_summary(
tf.div(tf.sqrt(tf.reduce_sum(tf.square(noise))),
BATCH_SIZE,
name='L2Norm'), ['scalar'])
wrong = tf.to_float(tf.logical_not(
tf.nn.in_top_k(logits, self.label, 1)),
name='wrong_vector')
add_tensor_summary(tf.reduce_mean(wrong, name='train_error'),
['scalar'])
return tf.add_n([cost, l2_cost], name='cost')
def optimizer(self):
lr_var = tf.get_variable("learning_rate",
initializer=self._lr,
trainable=False)
add_tensor_summary(lr_var, ['scalar'], main_tower_only=True)
return tf.train.AdamOptimizer(lr_var,
beta1=self._beta1,
beta2=self._beta2,
epsilon=1e-3)
def wbce_malis (logits, affs, gt_affs, gt_seg, neighborhood, affs_shape, name='wbce_malis', limit_z=False):
with tf.name_scope (name):
pos_cnt = tf.cast (tf.count_nonzero (tf.cast (gt_affs, tf.int32)), tf.float32)
neg_cnt = tf.cast (tf.constant (np.prod (affs_shape)), tf.float32) - pos_cnt
pos_weight = neg_cnt / pos_cnt
summary.add_tensor_summary (pos_weight, types=['scalar'])
weighted_bce_losses = tf.nn.weighted_cross_entropy_with_logits (targets=gt_affs, logits=logits, pos_weight=pos_weight)
malis_weights, pos_weights, neg_weights = malis_weights_op(affs, gt_affs, gt_seg, neighborhood, name='malis_weights', limit_z=limit_z)
pos_weights = tf.identity (pos_weights, name='pos_weight')
neg_weights = tf.identity (neg_weights, name='neg_weight')
malis_weighted_bce_loss = tf.reduce_mean (tf.multiply (malis_weights, weighted_bce_losses), name='malis_weighted_bce_loss')
return malis_weighted_bce_loss
def _build_graph(self, inputs):
G = tf.get_default_graph() # For round
tf.local_variables_initializer()
tf.global_variables_initializer()
pi, pm, pl, ui, um, ul, sm = inputs
pi = cvt2tanh(pi)
pm = cvt2tanh(pm)
pl = cvt2tanh(pl)
ui = cvt2tanh(ui)
um = cvt2tanh(um)
ul = cvt2tanh(ul)
sm = cvt2tanh(sm)
def tf_rand_score(x1, x2):
return np.mean(1.0 -
adjusted_rand_score(x1.flatten(), x2.flatten()))
def rounded(label, factor=MAX_LABEL, name='quantized'):
with G.gradient_override_map({"Round": "Identity"}):
with freeze_variables():
with tf.name_scope(name=name):
label = cvt2imag(label, maxVal=factor)
label = tf.round(label)
label = cvt2tanh(label, maxVal=factor)
return tf.identity(label, name=name)
with argscope([Conv2D, Deconv2D, FullyConnected],
W_init=tf.truncated_normal_initializer(stddev=0.02),
use_bias=False), \
argscope(BatchNorm, gamma_init=tf.random_uniform_initializer()), \
argscope([Conv2D, Deconv2D, BatchNorm], data_format='NHWC'), \
argscope(LeakyReLU, alpha=0.2):
with tf.variable_scope('gen'):
# Real pair image 4 gen
with tf.variable_scope('I2M'):
pim, feat_im = self.generator(pi)
with tf.variable_scope('M2L'):
piml, feat_iml = self.generator(
tf.concat([pim, sm], axis=-1))
pml, feat_ml = self.generator(tf.concat([pm, sm], axis=-1))
with tf.variable_scope('discrim'):
# with tf.variable_scope('I'):
# i_dis_real = self.discriminator(ui)
# i_dis_fake_from_label = self.discriminator(plmi)
with tf.variable_scope('M'):
m_dis_real = self.discriminator(um)
m_dis_fake_from_image = self.discriminator(pim)
# m_dis_fake_from_label = self.discriminator(plm)
with tf.variable_scope('L'):
l_dis_real = self.discriminator(ul)
l_dis_fake_from_image = self.discriminator(piml)
# piml = rounded(piml) #
# pml = rounded(pml)
with tf.name_scope('Recon_L_loss'):
recon_iml = tf.reduce_mean(tf.abs((pl) - (piml)), name='recon_iml')
recon_ml = tf.reduce_mean(tf.abs((pl) - (pml)), name='recon_ml')
with tf.name_scope('Recon_M_loss'):
recon_im = tf.reduce_mean(tf.abs((pm) - (pim)), name='recon_im')
with tf.name_scope('GAN_loss'):
# G_loss_IL, D_loss_IL = self.build_losses(i_dis_real, i_dis_fake_from_label, name='IL')
G_loss_IL, D_loss_IL = self.build_losses(l_dis_real,
l_dis_fake_from_image,
name='IL')
G_loss_MI, D_loss_MI = self.build_losses(m_dis_real,
m_dis_fake_from_image,
name='MI')
# G_loss_ML, D_loss_ML = self.build_losses(m_dis_real, m_dis_fake_from_label, name='ML')
# custom loss for membr
with tf.name_scope('membr_loss'):
def membr_loss(y_true, y_pred, name='membr_loss'):
loss = tf.reduce_mean(
tf.subtract(
binary_cross_entropy(cvt2imag(y_true, maxVal=1.0),
cvt2imag(y_pred, maxVal=1.0)),
dice_coe(cvt2imag(y_true, maxVal=1.0),
cvt2imag(y_pred, maxVal=1.0),
axis=[1, 2, 3],
loss_type='jaccard')))
# loss = tf.reshape(loss, [-1])
return tf.identity(loss, name=name)
membr_im = membr_loss(pm, pim, name='membr_im')
membr_iml = membr_loss(pl, piml, name='membr_iml')
membr_ml = membr_loss(pl, pml, name='membr_ml')
# custom loss for label
with tf.name_scope('label_loss'):
def label_loss(y_true_L, y_pred_L, y_grad_M, name='label_loss'):
g_mag_grad_M = cvt2imag(y_grad_M, maxVal=1.0)
mag_grad_L = magnitute_central_difference(y_pred_L,
name='mag_grad_L')
cond = tf.greater(mag_grad_L, tf.zeros_like(mag_grad_L))
thresholded_mag_grad_L = tf.where(
cond,
tf.ones_like(mag_grad_L),
tf.zeros_like(mag_grad_L),
name='thresholded_mag_grad_L')
gtv_guess = tf.multiply(g_mag_grad_M,
thresholded_mag_grad_L,
name='gtv_guess')
loss_gtv_guess = tf.reduce_mean(gtv_guess,
name='loss_gtv_guess')
# loss_gtv_guess = tf.reshape(loss_gtv_guess, [-1])
thresholded_mag_grad_L = cvt2tanh(thresholded_mag_grad_L,
maxVal=1.0)
gtv_guess = cvt2tanh(gtv_guess, maxVal=1.0)
return tf.identity(loss_gtv_guess,
name=name), thresholded_mag_grad_L
label_iml, g_iml = label_loss(None, piml, pim, name='label_iml')
label_ml, g_ml = label_loss(None, pml, pm, name='label_loss_ml')
# custom loss for tf_rand_score
with tf.name_scope('rand_loss'):
rand_iml = tf.reduce_mean(
tf.cast(tf.py_func(tf_rand_score, [piml, pl], tf.float64),
tf.float32))
rand_ml = tf.reduce_mean(
tf.cast(tf.py_func(tf_rand_score, [pml, pl], tf.float64),
tf.float32))
with tf.name_scope('discrim_loss'):
def regDLF(y_true,
y_pred,
alpha=1,
beta=1,
gamma=0.01,
delta_v=0.5,
delta_d=1.5,
name='loss_discrim'):
def tf_norm(inputs, axis=1, epsilon=1e-7, name='safe_norm'):
squared_norm = tf.reduce_sum(tf.square(inputs),
axis=axis,
keep_dims=True)
safe_norm = tf.sqrt(squared_norm + epsilon)
return tf.identity(safe_norm, name=name)
###
y_true = tf.reshape(y_true, [DIMZ * DIMY * DIMX])
nDim = tf.shape(y_pred)[-1]
X = tf.reshape(y_pred, [DIMZ * DIMY * DIMX, nDim])
uniqueLabels, uniqueInd = tf.unique(y_true)
numUnique = tf.size(
uniqueLabels) # Get the number of connected component
Sigma = tf.unsorted_segment_sum(X, uniqueInd, numUnique)
# ones_Sigma = tf.ones((tf.shape(X)[0], 1))
ones_Sigma = tf.ones_like(X)
ones_Sigma = tf.unsorted_segment_sum(ones_Sigma, uniqueInd,
numUnique)
mu = tf.divide(Sigma, ones_Sigma)
Lreg = tf.reduce_mean(tf.norm(mu, axis=1, ord=1))
T = tf.norm(tf.subtract(tf.gather(mu, uniqueInd), X),
axis=1,
ord=1)
T = tf.divide(T, Lreg)
T = tf.subtract(T, delta_v)
T = tf.clip_by_value(T, 0, T)
T = tf.square(T)
ones_Sigma = tf.ones_like(uniqueInd, dtype=tf.float32)
ones_Sigma = tf.unsorted_segment_sum(ones_Sigma, uniqueInd,
numUnique)
clusterSigma = tf.unsorted_segment_sum(T, uniqueInd, numUnique)
clusterSigma = tf.divide(clusterSigma, ones_Sigma)
# Lvar = tf.reduce_mean(clusterSigma, axis=0)
Lvar = tf.reduce_mean(clusterSigma)
mu_interleaved_rep = tf.tile(mu, [numUnique, 1])
mu_band_rep = tf.tile(mu, [1, numUnique])
mu_band_rep = tf.reshape(mu_band_rep,
(numUnique * numUnique, nDim))
mu_diff = tf.subtract(mu_band_rep, mu_interleaved_rep)
# Remove zero vector
# intermediate_tensor = reduce_sum(tf.abs(x), 1)
# zero_vector = tf.zeros(shape=(1,1), dtype=tf.float32)
# bool_mask = tf.not_equal(intermediate_tensor, zero_vector)
# omit_zeros = tf.boolean_mask(x, bool_mask)
intermediate_tensor = tf.reduce_sum(tf.abs(mu_diff), 1)
zero_vector = tf.zeros(shape=(1, 1), dtype=tf.float32)
bool_mask = tf.not_equal(intermediate_tensor, zero_vector)
omit_zeros = tf.boolean_mask(mu_diff, bool_mask)
mu_diff = tf.expand_dims(omit_zeros, axis=1)
print mu_diff
mu_diff = tf.norm(mu_diff, ord=1)
# squared_norm = tf.reduce_sum(tf.square(s), axis=axis,keep_dims=True)
# safe_norm = tf.sqrt(squared_norm + epsilon)
# squared_norm = tf.reduce_sum(tf.square(omit_zeros), axis=-1,keep_dims=True)
# safe_norm = tf.sqrt(squared_norm + 1e-6)
# mu_diff = safe_norm
mu_diff = tf.divide(mu_diff, Lreg)
mu_diff = tf.subtract(2 * delta_d, mu_diff)
mu_diff = tf.clip_by_value(mu_diff, 0, mu_diff)
mu_diff = tf.square(mu_diff)
numUniqueF = tf.cast(numUnique, tf.float32)
Ldist = tf.reduce_mean(mu_diff)
# L = alpha * Lvar + beta * Ldist + gamma * Lreg
# L = tf.reduce_mean(L, keep_dims=True)
L = tf.reduce_sum([alpha * Lvar, beta * Ldist, gamma * Lreg],
keep_dims=False)
print L
print Ldist
print Lvar
print Lreg
return tf.identity(L, name=name)
discrim_im = regDLF(cvt2imag(pm, maxVal=1.0),
feat_im,
name='discrim_im')
discrim_iml = regDLF(cvt2imag(pl, maxVal=1.0),
feat_iml,
name='discrim_iml')
discrim_ml = regDLF(cvt2imag(pl, maxVal=1.0),
feat_ml,
name='discrim_ml')
print discrim_im
print discrim_iml
print discrim_ml
print rand_iml
print rand_ml
self.g_loss = tf.reduce_sum(
[
#(recon_imi), # + recon_lmi + recon_imlmi), #
# (recon_iml), # + recon_lml + recon_lmiml), #
# (recon_im), # + recon_lm + recon_mim + recon_mlm),
# (recon_ml), # + recon_lm + recon_mim + recon_mlm),
# (rand_iml), # + rand_lml + rand_lmiml), #
# (rand_ml), # + rand_lm + rand_mim + rand_mlm),
# (G_loss_IL + G_loss_LI + G_loss_MI + G_loss_ML),
(G_loss_IL + G_loss_MI),
# 0.1*(discrim_im + discrim_iml + discrim_ml),
0.001 * (
membr_im
), # + membr_lm + membr_imlm + membr_lmim + membr_mlm + membr_mim),
0.001 * (
membr_iml
), # + membr_lm + membr_imlm + membr_lmim + membr_mlm + membr_mim),
0.001 * (
membr_ml
), # + membr_lm + membr_imlm + membr_lmim + membr_mlm + membr_mim),
# (label_iml + label_lml + label_lmiml + label_ml)
# (label_iml + label_ml)
],
name='G_loss_total')
self.d_loss = tf.reduce_sum(
[
# (D_loss_IL + D_loss_LI + D_loss_MI + D_loss_ML),
(D_loss_IL + D_loss_MI),
],
name='D_loss_total')
wd_g = regularize_cost('gen/.*/W',
l2_regularizer(1e-5),
name='G_regularize')
wd_d = regularize_cost('discrim/.*/W',
l2_regularizer(1e-5),
name='D_regularize')
self.g_loss = tf.add(self.g_loss, wd_g, name='g_loss')
self.d_loss = tf.add(self.d_loss, wd_d, name='d_loss')
self.collect_variables()
add_moving_summary(self.d_loss, self.g_loss)
# add_moving_summary(
with tf.name_scope('summaries'):
add_tensor_summary(recon_iml, types=['scalar'], name='recon_iml')
add_tensor_summary(recon_im, types=['scalar'], name='recon_im')
add_tensor_summary(recon_ml, types=['scalar'], name='recon_ml')
add_tensor_summary(label_iml, types=['scalar'], name='label_iml')
add_tensor_summary(label_ml, types=['scalar'], name='label_ml')
add_tensor_summary(rand_iml, types=['scalar'], name='rand_iml')
add_tensor_summary(rand_ml, types=['scalar'], name='rand_ml')
add_tensor_summary(membr_im, types=['scalar'], name='membr_im')
add_tensor_summary(membr_iml, types=['scalar'], name='membr_iml')
add_tensor_summary(membr_ml, types=['scalar'], name='membr_ml')
add_tensor_summary(discrim_im, types=['scalar'], name='discrim_im')
add_tensor_summary(discrim_iml,
types=['scalar'],
name='discrim_iml')
add_tensor_summary(discrim_ml, types=['scalar'], name='discrim_ml')
# recon_imi, recon_lmi, recon_imlmi,
# recon_lml, recon_iml, recon_lmiml,
# recon_mim, recon_mlm, recon_im , recon_lm,
# )
viz = tf.concat(
[
tf.concat([ui, pi, sm, pim, piml, g_iml], 2),
# tf.concat([ul, pl, plm, plmi, plmim, plmiml], 2),
tf.concat([um, pl, ul, pm, pml, g_ml], 2),
# tf.concat([pl, pl, g_iml, g_lml, g_lmiml, g_ml], 2),
],
1)
# add_moving_summary(
# recon_imi, recon_lmi,# recon_imlmi,
# recon_lml, recon_iml,# recon_lmiml,
# recon_mim, recon_mlm, recon_im , recon_lm,
# )
# viz = tf.concat([tf.concat([ui, pi, pim, piml], 2),
# tf.concat([ul, pl, plm, plmi], 2),
# tf.concat([um, pm, pmi, pmim], 2),
# tf.concat([um, pm, pml, pmlm], 2),
# ], 1)
viz = cvt2imag(viz)
viz = tf.cast(tf.clip_by_value(viz, 0, 255), tf.uint8, name='viz')
tf.summary.image('colorized', viz, max_outputs=50)
def _build_graph(self, inputs):
G = tf.get_default_graph() # For round
tf.local_variables_initializer()
tf.global_variables_initializer()
pi, pm, pl, ui, um, ul = inputs
pi = tf_2tanh(pi)
pm = tf_2tanh(pm)
pl = tf_2tanh(pl)
ui = tf_2tanh(ui)
um = tf_2tanh(um)
ul = tf_2tanh(ul)
pl = toMaxLabels(pl, factor=MAX_LABEL) #0 MAX
pl = toRangeTanh(pl, factor=MAX_LABEL) # -1 1
pa = seg_to_aff_op(toMaxLabels(pl, factor=MAX_LABEL),
name='pa') # Calculate the affinity #0, 1
with argscope([Conv2D, Deconv2D, FullyConnected],
W_init=tf.truncated_normal_initializer(stddev=0.02),
use_bias=False), \
argscope(BatchNorm, gamma_init=tf.random_uniform_initializer()), \
argscope([Conv2D, Deconv2D, BatchNorm], data_format='NHWC'), \
argscope([Conv2D], dilation_rate=1):
with tf.variable_scope('gen'):
with tf.variable_scope('affnt'):
pia, feat_ia = self.generator(pi, last_dim=3)
with tf.variable_scope('label'):
pil, feat_il = self.generator(pi, last_dim=1)
#
with tf.variable_scope('discrim'):
dis_real = self.discriminator(tf.concat([pi, pl, pa], axis=-1))
dis_fake = self.discriminator(
tf.concat([pi, pil, pia], axis=-1))
with G.gradient_override_map({"Round": "Identity"}):
with tf.variable_scope('fix'):
# Round
pil = toMaxLabels(pil, factor=MAX_LABEL) #0 MAX
pil = toRangeTanh(pil, factor=MAX_LABEL) # -1 1
pila = seg_to_aff_op(
toMaxLabels(pil, factor=MAX_LABEL),
name='pila') # Calculate the affinity #0, 1
pial = aff_to_seg_op(tf_2imag(pia, maxVal=1.0),
name='pial') # Calculate the segmentation
pial = toRangeTanh(pial, factor=MAX_LABEL) # -1, 1
pil_ = (pial + pil) / 2.0 # Return the result
pia_ = (pila + pia) / 2.0
with tf.name_scope('GAN_loss'):
G_loss, D_loss = self.build_losses(dis_real,
dis_fake,
name='gan_loss')
with tf.name_scope('rand_loss'):
rand_il = tf.reduce_mean(tf_rand_score(pl, pil_), name='rand_loss')
# rand_il = tf.reduce_mean(tf.cast(tf.py_func (tf_rand_score, [pl, pil_], tf.float64), tf.float32), name='rand_loss')
with tf.name_scope('discrim_loss'):
def regDLF(y_true,
y_pred,
alpha=1,
beta=1,
gamma=0.01,
delta_v=0.5,
delta_d=1.5,
name='loss_discrim'):
def tf_norm(inputs, axis=1, epsilon=1e-7, name='safe_norm'):
squared_norm = tf.reduce_sum(tf.square(inputs),
axis=axis,
keep_dims=True)
safe_norm = tf.sqrt(squared_norm + epsilon)
return tf.identity(safe_norm, name=name)
###
lins = tf.linspace(0.0, DIMZ * DIMY * DIMX, DIMZ * DIMY * DIMX)
lins = tf.cast(lins, tf.int32)
# lins = lins / tf.reduce_max(lins) * 255
# lins = tf_2tanh(lins)
# lins = tf.reshape(lins, tf.shape(y_true), name='lins_3d')
# print lins
lins_z = tf.div(lins, (DIMY * DIMX))
lins_y = tf.div(tf.mod(lins, (DIMY * DIMX)), DIMY)
lins_x = tf.mod(tf.mod(lins, (DIMY * DIMX)), DIMY)
lins = tf.cast(lins, tf.float32)
lins_z = tf.cast(lins_z, tf.float32)
lins_y = tf.cast(lins_y, tf.float32)
lins_x = tf.cast(lins_x, tf.float32)
lins = lins / tf.reduce_max(lins) * 255
lins_z = lins_z / tf.reduce_max(lins_z) * 255
lins_y = lins_y / tf.reduce_max(lins_y) * 255
lins_x = lins_x / tf.reduce_max(lins_x) * 255
lins = tf_2tanh(lins)
lins_z = tf_2tanh(lins_z)
lins_y = tf_2tanh(lins_y)
lins_x = tf_2tanh(lins_x)
lins = tf.reshape(lins, tf.shape(y_true), name='lins')
lins_z = tf.reshape(lins_z, tf.shape(y_true), name='lins_z')
lins_y = tf.reshape(lins_y, tf.shape(y_true), name='lins_y')
lins_x = tf.reshape(lins_x, tf.shape(y_true), name='lins_x')
y_true = tf.reshape(y_true, [DIMZ * DIMY * DIMX])
y_pred = tf.concat([y_pred, lins, lins_z, lins_y, lins_x],
axis=-1)
nDim = tf.shape(y_pred)[-1]
X = tf.reshape(y_pred, [DIMZ * DIMY * DIMX, nDim])
uniqueLabels, uniqueInd = tf.unique(y_true)
numUnique = tf.size(
uniqueLabels) # Get the number of connected component
Sigma = tf.unsorted_segment_sum(X, uniqueInd, numUnique)
# ones_Sigma = tf.ones((tf.shape(X)[0], 1))
ones_Sigma = tf.ones_like(X)
ones_Sigma = tf.unsorted_segment_sum(ones_Sigma, uniqueInd,
numUnique)
mu = tf.divide(Sigma, ones_Sigma)
Lreg = tf.reduce_mean(tf.norm(mu, axis=1, ord=1))
T = tf.norm(tf.subtract(tf.gather(mu, uniqueInd), X),
axis=1,
ord=1)
T = tf.divide(T, Lreg)
T = tf.subtract(T, delta_v)
T = tf.clip_by_value(T, 0, T)
T = tf.square(T)
ones_Sigma = tf.ones_like(uniqueInd, dtype=tf.float32)
ones_Sigma = tf.unsorted_segment_sum(ones_Sigma, uniqueInd,
numUnique)
clusterSigma = tf.unsorted_segment_sum(T, uniqueInd, numUnique)
clusterSigma = tf.divide(clusterSigma, ones_Sigma)
# Lvar = tf.reduce_mean(clusterSigma, axis=0)
Lvar = tf.reduce_mean(clusterSigma)
mu_interleaved_rep = tf.tile(mu, [numUnique, 1])
mu_band_rep = tf.tile(mu, [1, numUnique])
mu_band_rep = tf.reshape(mu_band_rep,
(numUnique * numUnique, nDim))
mu_diff = tf.subtract(mu_band_rep, mu_interleaved_rep)
# Remove zero vector
# intermediate_tensor = reduce_sum(tf.abs(x), 1)
# zero_vector = tf.zeros(shape=(1,1), dtype=tf.float32)
# bool_mask = tf.not_equal(intermediate_tensor, zero_vector)
# omit_zeros = tf.boolean_mask(x, bool_mask)
intermediate_tensor = tf.reduce_sum(tf.abs(mu_diff), 1)
zero_vector = tf.zeros(shape=(1, 1), dtype=tf.float32)
bool_mask = tf.not_equal(intermediate_tensor, zero_vector)
omit_zeros = tf.boolean_mask(mu_diff, bool_mask)
mu_diff = tf.expand_dims(omit_zeros, axis=1)
print mu_diff
mu_diff = tf.norm(mu_diff, ord=1)
# squared_norm = tf.reduce_sum(tf.square(s), axis=axis,keep_dims=True)
# safe_norm = tf.sqrt(squared_norm + epsilon)
# squared_norm = tf.reduce_sum(tf.square(omit_zeros), axis=-1,keep_dims=True)
# safe_norm = tf.sqrt(squared_norm + 1e-6)
# mu_diff = safe_norm
mu_diff = tf.divide(mu_diff, Lreg)
mu_diff = tf.subtract(2 * delta_d, mu_diff)
mu_diff = tf.clip_by_value(mu_diff, 0, mu_diff)
mu_diff = tf.square(mu_diff)
numUniqueF = tf.cast(numUnique, tf.float32)
Ldist = tf.reduce_mean(mu_diff)
# L = alpha * Lvar + beta * Ldist + gamma * Lreg
# L = tf.reduce_mean(L, keep_dims=True)
L = tf.reduce_sum([alpha * Lvar, beta * Ldist, gamma * Lreg],
keep_dims=False)
print L
print Ldist
print Lvar
print Lreg
return tf.identity(L, name=name)
discrim_il = regDLF(toMaxLabels(pl, factor=MAX_LABEL),
tf.concat([feat_il, feat_ia], axis=-1),
name='discrim_il')
with tf.name_scope('recon_loss'):
recon_il = tf.reduce_mean(tf.abs(pl - pil_), name='recon_il')
with tf.name_scope('affnt_loss'):
# affnt_il = tf.reduce_mean(tf.abs(pa - pia_), name='affnt_il')
affnt_il = tf.reduce_mean(
tf.subtract(
binary_cross_entropy(pa, pia_),
dice_coe(pa, pia_, axis=[0, 1, 2, 3],
loss_type='jaccard')))
with tf.name_scope('residual_loss'):
# residual_a = tf.reduce_mean(tf.abs(pia - pila), name='residual_a')
# residual_l = tf.reduce_mean(tf.abs(pil - pial), name='residual_l')
residual_a = tf.reduce_mean(tf.cast(tf.not_equal(pia, pila),
tf.float32),
name='residual_a')
residual_l = tf.reduce_mean(tf.cast(tf.not_equal(pil, pial),
tf.float32),
name='residual_l')
residual_il = tf.reduce_mean([residual_a, residual_l],
name='residual_il')
def label_imag(y_pred_L, name='label_imag'):
mag_grad_L = magnitute_central_difference(y_pred_L,
name='mag_grad_L')
cond = tf.greater(mag_grad_L, tf.zeros_like(mag_grad_L))
thresholded_mag_grad_L = tf.where(cond,
tf.ones_like(mag_grad_L),
tf.zeros_like(mag_grad_L),
name='thresholded_mag_grad_L')
thresholded_mag_grad_L = tf_2tanh(thresholded_mag_grad_L,
maxVal=1.0)
return thresholded_mag_grad_L
g_il = label_imag(pil_, name='label_il')
g_l = label_imag(pl, name='label_l')
self.g_loss = tf.reduce_sum([
1 * (G_loss),
10 * (recon_il),
10 * (residual_il),
1 * (rand_il),
50 * (discrim_il),
0.005 * affnt_il,
],
name='G_loss_total')
self.d_loss = tf.reduce_sum([D_loss], name='D_loss_total')
wd_g = regularize_cost('gen/.*/W',
l2_regularizer(1e-5),
name='G_regularize')
wd_d = regularize_cost('discrim/.*/W',
l2_regularizer(1e-5),
name='D_regularize')
self.g_loss = tf.add(self.g_loss, wd_g, name='g_loss')
self.d_loss = tf.add(self.d_loss, wd_d, name='d_loss')
self.collect_variables()
add_moving_summary(self.d_loss, self.g_loss)
with tf.name_scope('summaries'):
add_tensor_summary(recon_il, types=['scalar'], name='recon_il')
add_tensor_summary(rand_il, types=['scalar'], name='rand_il')
add_tensor_summary(discrim_il, types=['scalar'], name='discrim_il')
add_tensor_summary(affnt_il, types=['scalar'], name='affnt_il')
add_tensor_summary(residual_il,
types=['scalar'],
name='residual_il')
#Segmentation
viz = tf.concat([
tf.concat([pi, pl, g_l, g_il], 2),
tf.concat([tf.zeros_like(pi), pil, pial, pil_], 2),
], 1)
viz = tf_2imag(viz)
viz = tf.cast(tf.clip_by_value(viz, 0, 255), tf.uint8, name='viz')
tf.summary.image('colorized', viz, max_outputs=50)
# Affinity
vis = tf.concat([pa, pila, pia, pia_], 2)
vis = tf_2imag(vis)
vis = tf.cast(tf.clip_by_value(vis, 0, 255), tf.uint8, name='vis')
tf.summary.image('affinities', vis, max_outputs=50)
def _build_graph(self, inputs):
# sImg2d # sImg the projection 2D, reshape from
VGG19_MEAN = np.array([123.68, 116.779, 103.939]) # RGB
VGG19_MEAN_TENSOR = tf.constant(VGG19_MEAN, dtype=tf.float32)
image, style = inputs # Split the input
@auto_reuse_variable_scope
def vgg19_encoder(source, name='VGG19_Encoder'):
with tf.variable_scope(name):
with varreplace.freeze_variables():
with argscope([Conv2D], kernel_shape=3, nl=tf.nn.relu):
source = source - VGG19_MEAN_TENSOR
conv1_1 = Conv2D('conv1_1', source, 64)
conv1_2 = Conv2D('conv1_2', conv1_1, 64)
pool1 = MaxPooling('pool1', conv1_2, 2) # 64
conv2_1 = Conv2D('conv2_1', pool1, 128)
conv2_2 = Conv2D('conv2_2', conv2_1, 128)
pool2 = MaxPooling('pool2', conv2_2, 2) # 32
conv3_1 = Conv2D('conv3_1', pool2, 256)
conv3_2 = Conv2D('conv3_2', conv3_1, 256)
conv3_3 = Conv2D('conv3_3', conv3_2, 256)
conv3_4 = Conv2D('conv3_4', conv3_3, 256)
pool3 = MaxPooling('pool3', conv3_4, 2) # 16
conv4_1 = Conv2D('conv4_1', pool3, 512)
conv4_2 = Conv2D('conv4_2', conv4_1, 512)
conv4_3 = Conv2D('conv4_3', conv4_2, 512)
conv4_4 = Conv2D('conv4_4', conv4_3, 512)
pool4 = MaxPooling('pool4', conv4_4, 2) # 8
conv5_1 = Conv2D('conv5_1', pool4, 512)
conv5_2 = Conv2D('conv5_2', conv5_1, 512)
conv5_3 = Conv2D('conv5_3', conv5_2, 512)
conv5_4 = Conv2D('conv5_4', conv5_3, 512)
pool5 = MaxPooling('pool5', conv5_4, 2) # 4
# return normalize(conv4_1), [normalize(conv1_1), normalize(conv2_1), normalize(conv3_1), normalize(conv4_1)] # List of returned feature maps
return conv4_1, [conv1_1, conv2_1, conv3_1, conv4_1]
@auto_reuse_variable_scope
def vgg19_decoder(source, name='VGG19_Decoder'):
with tf.variable_scope(name):
# with varreplace.freeze_variables():
with argscope([Conv2D], kernel_shape=3, nl=tf.nn.elu):
with argscope([Deconv2D],
kernel_shape=3,
strides=(2, 2),
nl=tf.nn.elu):
# conv5_4 = Conv2D('conv5_4', input, 512)
# conv5_3 = Conv2D('conv5_3', conv5_4, 512)
# conv5_2 = Conv2D('conv5_2', conv5_3, 512)
# conv5_1 = Conv2D('conv5_1', conv5_2, 512)
# pool4 = Deconv2D('pool4', input, 512) # 8
# conv4_4 = Conv2D('conv4_4', pool4, 512)
# conv4_3 = Conv2D('conv4_3', conv4_4, 512)
# conv4_2 = Conv2D('conv4_2', conv4_3, 512)
# conv4_1 = Conv2D('conv4_1', conv4_2, 512)
pool3 = Subpix2D('pool3', source, 256) # 16
conv3_4 = Conv2D('conv3_4', pool3, 256)
conv3_3 = Conv2D('conv3_3', conv3_4, 256)
conv3_2 = Conv2D('conv3_2', conv3_3, 256)
conv3_1 = Conv2D('conv3_1', conv3_2, 256)
pool2 = Subpix2D('pool2', conv3_1, 128) # 32
conv2_2 = Conv2D('conv2_2', pool2, 128)
conv2_1 = Conv2D('conv2_1', conv2_2, 128)
pool1 = Subpix2D('pool1', conv2_1, 64) # 64
conv1_2 = Conv2D('conv1_2', pool1, 64)
conv1_1 = Conv2D('conv1_1', conv1_2, 64)
conv1_0 = Conv2D('conv1_0', conv1_1, 3)
conv1_0 = conv1_0 + VGG19_MEAN_TENSOR
# conv1_0 = 255.0*tf.nn.tanh(conv1_0)
# conv1_0 = tf_2tanh(conv1_0, maxVal=255.0)
# conv1_0 = tf_2imag(conv1_0, maxVal=255.0)
# conv1_0 = conv1_0 - VGG19_MEAN_TENSOR
return conv1_0 # List of feature maps
@auto_reuse_variable_scope
def vgg19_feature(source, name='VGG19_Feature'):
with tf.variable_scope(name):
with varreplace.freeze_variables():
with argscope([Conv2D], kernel_shape=3, nl=tf.nn.relu):
source = source - VGG19_MEAN_TENSOR
conv1_1 = Conv2D('conv1_1', source, 64)
conv1_2 = Conv2D('conv1_2', conv1_1, 64)
pool1 = MaxPooling('pool1', conv1_2, 2) # 64
conv2_1 = Conv2D('conv2_1', pool1, 128)
conv2_2 = Conv2D('conv2_2', conv2_1, 128)
pool2 = MaxPooling('pool2', conv2_2, 2) # 32
conv3_1 = Conv2D('conv3_1', pool2, 256)
conv3_2 = Conv2D('conv3_2', conv3_1, 256)
conv3_3 = Conv2D('conv3_3', conv3_2, 256)
conv3_4 = Conv2D('conv3_4', conv3_3, 256)
pool3 = MaxPooling('pool3', conv3_4, 2) # 16
conv4_1 = Conv2D('conv4_1', pool3, 512)
conv4_2 = Conv2D('conv4_2', conv4_1, 512)
conv4_3 = Conv2D('conv4_3', conv4_2, 512)
conv4_4 = Conv2D('conv4_4', conv4_3, 512)
pool4 = MaxPooling('pool4', conv4_4, 2) # 8
conv5_1 = Conv2D('conv5_1', pool4, 512)
conv5_2 = Conv2D('conv5_2', conv5_1, 512)
conv5_3 = Conv2D('conv5_3', conv5_2, 512)
conv5_4 = Conv2D('conv5_4', conv5_3, 512)
pool5 = MaxPooling('pool5', conv5_4, 2) # 4
return conv4_1, [conv1_1, conv2_1, conv3_1, conv4_1]
# return normalize(conv4_1), [normalize(conv1_1), normalize(conv2_1), normalize(conv3_1), normalize(conv4_1)] # List of returned feature maps
# Step 1: Run thru the encoder
image_encoded, image_feature = vgg19_encoder(image)
style_encoded, style_feature = vgg19_encoder(style)
# Step 2: Run thru the adain block to get t=AdIN(f(c), f(s))
merge_encoded = self._build_adain_layers(image_encoded, style_encoded)
# Step 3: Run thru the decoder to get the paint image
paint = vgg19_decoder(merge_encoded)
# Actually, vgg19_feature and vgg19_encoder are identical
# Splitting them to improve the programmability
paint_encoded, paint_feature = vgg19_feature(paint)
style_encoded, style_feature = vgg19_feature(style)
# print(merge_encoded.get_shape())
# print(paint_encoded.get_shape())
#
# Build losses here
#
with tf.name_scope('losses'):
losses = []
# Content loss between t and f(g(t))
content_loss = self._build_content_loss(merge_encoded,
paint_encoded,
weight=args.weight_c)
# add_moving_summary(content_loss)
add_tensor_summary(content_loss,
types=['scalar'],
name='content_loss')
losses.append(content_loss)
# Style losses between paint and style
style_losses = self._build_style_losses(paint_feature,
style_feature,
weight=args.weight_s)
for idx, style_loss in enumerate(style_losses):
add_tensor_summary(style_loss,
types=['scalar'],
name='style_loss')
losses.append(style_loss)
# Total variation loss
smoothness = tf.reduce_sum(tf.image.total_variation(paint))
add_tensor_summary(smoothness, types=['scalar'], name='smoothness')
losses.append(smoothness * args.weight_tv)
# Total loss
self.cost = tf.reduce_sum(
losses, name='self.cost') # this one goes to the optimizer
add_tensor_summary(self.cost, types=['scalar'], name='self.cost')
# Reconstruct img
# image = image + VGG19_MEAN_TENSOR
# style = style + VGG19_MEAN_TENSOR
paint = tf.identity(paint, name='paint')
# Build loss in here
# Visualization
viz = tf.concat([image, style, paint], axis=2)
viz = tf.cast(tf.clip_by_value(viz, 0, 255), tf.uint8, name='viz')
tf.summary.image('colorized', viz, max_outputs=50)
def build_graph(self, *inputs):
is_training = get_current_tower_context().is_training
image, anchor_labels, anchor_boxes, gt_boxes, gt_labels, gt_ids, orig_shape = inputs
image = self.preprocess(image) # 1CHW
featuremap = resnet_c4_backbone(image,
cfg.BACKBONE.RESNET_NUM_BLOCK[:3])
rpn_label_logits, rpn_box_logits = rpn_head('rpn', featuremap,
cfg.RPN.HEAD_DIM,
cfg.RPN.NUM_ANCHOR)
anchors = RPNAnchors(get_all_anchors(), anchor_labels, anchor_boxes)
anchors = anchors.narrow_to(featuremap)
image_shape2d = tf.shape(image)[2:] # h,w
# decode into actual image coordinates
pred_boxes_decoded = anchors.decode_logits(
rpn_box_logits) # fHxfWxNAx4, floatbox
proposal_boxes, proposal_scores = generate_rpn_proposals(
tf.reshape(pred_boxes_decoded, [-1, 4]),
tf.reshape(rpn_label_logits,
[-1]), image_shape2d, cfg.RPN.TRAIN_PRE_NMS_TOPK
if is_training else cfg.RPN.TEST_PRE_NMS_TOPK,
cfg.RPN.TRAIN_POST_NMS_TOPK
if is_training else cfg.RPN.TEST_POST_NMS_TOPK)
if is_training:
# sample proposal boxes in training
rcnn_boxes, rcnn_labels, fg_inds_wrt_gt = sample_fast_rcnn_targets(
proposal_boxes, gt_boxes, gt_labels)
else:
# The boxes to be used to crop RoIs.
# Use all proposal boxes in inference
rcnn_boxes = proposal_boxes
boxes_on_featuremap = rcnn_boxes * (1.0 / cfg.RPN.ANCHOR_STRIDE)
# size? #proposals*h*w*c?
roi_resized = roi_align(featuremap, boxes_on_featuremap, 14)
feature_fastrcnn = resnet_conv5(
roi_resized, cfg.BACKBONE.RESNET_NUM_BLOCK[-1]) # nxcx7x7
# Keep C5 feature to be shared with mask branch
feature_gap = GlobalAvgPooling('gap',
feature_fastrcnn,
data_format='channels_first')
fastrcnn_label_logits, fastrcnn_box_logits = fastrcnn_outputs(
'fastrcnn', feature_gap, cfg.DATA.NUM_CLASS)
if is_training:
# rpn loss
rpn_label_loss, rpn_box_loss = rpn_losses(
anchors.gt_labels, anchors.encoded_gt_boxes(),
rpn_label_logits, rpn_box_logits)
# fastrcnn loss
matched_gt_boxes = tf.gather(gt_boxes, fg_inds_wrt_gt)
fg_inds_wrt_sample = tf.reshape(tf.where(rcnn_labels > 0),
[-1]) # fg inds w.r.t all samples
# outputs from fg proposals
fg_sampled_boxes = tf.gather(rcnn_boxes, fg_inds_wrt_sample)
fg_fastrcnn_box_logits = tf.gather(fastrcnn_box_logits,
fg_inds_wrt_sample)
# rcnn_labels: the labels of the proposals
# fg_sampled_boxes: fg proposals
# matched_gt_boxes: just like RPN, the gt boxes
# that match the corresponding fg proposals
fastrcnn_label_loss, fastrcnn_box_loss = self.fastrcnn_training(
image, rcnn_labels, fg_sampled_boxes, matched_gt_boxes,
fastrcnn_label_logits, fg_fastrcnn_box_logits)
# acquire pred for re-id training
# turning NMS off gives re-id branch more training samples
if cfg.RE_ID.NMS:
boxes, final_labels, final_probs = self.fastrcnn_inference(
image_shape2d, rcnn_boxes, fastrcnn_label_logits,
fastrcnn_box_logits)
else:
boxes, final_labels, final_probs = self.fastrcnn_inference_id(
image_shape2d, rcnn_boxes, fastrcnn_label_logits,
fastrcnn_box_logits)
# scale = tf.sqrt(tf.cast(image_shape2d[0], tf.float32) / tf.cast(orig_shape[0], tf.float32) *
# tf.cast(image_shape2d[1], tf.float32) / tf.cast(orig_shape[1], tf.float32))
# final_boxes = boxes / scale
# # boxes are already clipped inside the graph, but after the floating point scaling, this may not be true any more.
# final_boxes = tf_clip_boxes(final_boxes, orig_shape)
# IOU, discard bad dets, assign re-id labels
# the results are already NMS so no need to NMS again
# crop from conv4 with dets (maybe plus gts)
# feedforward re-id branch
# resizing during ROIalign?
iou = pairwise_iou(boxes, gt_boxes) # are the gt boxes resized?
tp_mask = tf.reduce_max(iou, axis=1) >= cfg.RE_ID.IOU_THRESH
iou = tf.boolean_mask(iou, tp_mask)
# return iou to debug
def re_id_loss(pred_boxes, pred_matching_gt_ids, featuremap):
with tf.variable_scope('id_head'):
num_of_samples_used = tf.get_variable(
'num_of_samples_used', initializer=0, trainable=False)
num_of_samples_used = num_of_samples_used.assign_add(
tf.shape(pred_boxes)[0])
boxes_on_featuremap = pred_boxes * (1.0 /
cfg.RPN.ANCHOR_STRIDE)
# name scope?
# stop gradient
roi_resized = roi_align(featuremap, boxes_on_featuremap,
14)
feature_idhead = resnet_conv5(
roi_resized,
cfg.BACKBONE.RESNET_NUM_BLOCK[-1]) # nxcx7x7
feature_gap = GlobalAvgPooling(
'gap', feature_idhead, data_format='channels_first')
init = tf.variance_scaling_initializer()
hidden = FullyConnected('fc6',
feature_gap,
1024,
kernel_initializer=init,
activation=tf.nn.relu)
hidden = FullyConnected('fc7',
hidden,
1024,
kernel_initializer=init,
activation=tf.nn.relu)
hidden = FullyConnected('fc8',
hidden,
256,
kernel_initializer=init,
activation=tf.nn.relu)
id_logits = FullyConnected(
'class',
hidden,
cfg.DATA.NUM_ID,
kernel_initializer=tf.random_normal_initializer(
stddev=0.01))
label_loss = tf.nn.sparse_softmax_cross_entropy_with_logits(
labels=pred_matching_gt_ids, logits=id_logits)
label_loss = tf.reduce_mean(label_loss, name='label_loss')
return label_loss, num_of_samples_used
def check_unid_pedes(iou, gt_ids, boxes, tp_mask, featuremap):
pred_gt_ind = tf.argmax(iou, axis=1)
# output following tensors
# pick out the -2 class here
pred_matching_gt_ids = tf.gather(gt_ids, pred_gt_ind)
pred_boxes = tf.boolean_mask(boxes, tp_mask)
# label 1 corresponds to unid pedes
unid_ind = tf.not_equal(pred_matching_gt_ids, 1)
pred_matching_gt_ids = tf.boolean_mask(pred_matching_gt_ids,
unid_ind)
pred_boxes = tf.boolean_mask(pred_boxes, unid_ind)
ret = tf.cond(
tf.equal(tf.size(pred_boxes), 0), lambda:
(tf.constant(cfg.RE_ID.STABLE_LOSS), tf.constant(0)),
lambda: re_id_loss(pred_boxes, pred_matching_gt_ids,
featuremap))
return ret
with tf.name_scope('id_head'):
# no detection has IOU > 0.7, re-id returns 0 loss
re_id_loss, num_of_samples_used = tf.cond(
tf.equal(tf.size(iou), 0), lambda:
(tf.constant(cfg.RE_ID.STABLE_LOSS), tf.constant(0)),
lambda: check_unid_pedes(iou, gt_ids, boxes, tp_mask,
featuremap))
add_tensor_summary(num_of_samples_used, ['scalar'],
name='num_of_samples_used')
# for debug, use tensor name to take out the handle
# return re_id_loss
# pred_gt_ind = tf.argmax(iou, axis=1)
# # output following tensors
# # pick out the -2 class here
# pred_gt_ids = tf.gather(gt_ids, pred_gt_ind)
# pred_boxes = tf.boolean_mask(boxes, tp_mask)
# unid_ind = pred_gt_ids != 1
# return unid_ind
# return tf.shape(boxes)[0]
unnormed_id_loss = tf.identity(re_id_loss, name='unnormed_id_loss')
re_id_loss = tf.divide(re_id_loss, cfg.RE_ID.LOSS_NORMALIZATION,
're_id_loss')
add_moving_summary(unnormed_id_loss)
add_moving_summary(re_id_loss)
wd_cost = regularize_cost('.*/W',
l2_regularizer(cfg.TRAIN.WEIGHT_DECAY),
name='wd_cost')
# weights on the losses?
total_cost = tf.add_n([
rpn_label_loss, rpn_box_loss, fastrcnn_label_loss,
fastrcnn_box_loss, re_id_loss, wd_cost
], 'total_cost')
add_moving_summary(total_cost, wd_cost)
return total_cost
else:
if cfg.RE_ID.QUERY_EVAL:
# resize the gt_boxes in dataflow
final_boxes = gt_boxes
else:
final_boxes, final_labels, _ = self.fastrcnn_inference(
image_shape2d, rcnn_boxes, fastrcnn_label_logits,
fastrcnn_box_logits)
with tf.variable_scope('id_head'):
preds_on_featuremap = final_boxes * (1.0 /
cfg.RPN.ANCHOR_STRIDE)
# name scope?
# stop gradient
roi_resized = roi_align(featuremap, preds_on_featuremap, 14)
feature_idhead = resnet_conv5(
roi_resized, cfg.BACKBONE.RESNET_NUM_BLOCK[-1]) # nxcx7x7
feature_gap = GlobalAvgPooling('gap',
feature_idhead,
data_format='channels_first')
hidden = FullyConnected('fc6',
feature_gap,
1024,
activation=tf.nn.relu)
hidden = FullyConnected('fc7',
hidden,
1024,
activation=tf.nn.relu)
fv = FullyConnected('fc8', hidden, 256, activation=tf.nn.relu)
id_logits = FullyConnected(
'class',
fv,
cfg.DATA.NUM_ID,
kernel_initializer=tf.random_normal_initializer(
stddev=0.01))
scale = tf.sqrt(
tf.cast(image_shape2d[0], tf.float32) /
tf.cast(orig_shape[0], tf.float32) *
tf.cast(image_shape2d[1], tf.float32) /
tf.cast(orig_shape[1], tf.float32))
rescaled_final_boxes = final_boxes / scale
# boxes are already clipped inside the graph, but after the floating point scaling, this may not be true any more.
# rescaled_final_boxes_pre_clip = tf.identity(rescaled_final_boxes, name='re_boxes_pre_clip')
rescaled_final_boxes = tf_clip_boxes(rescaled_final_boxes,
orig_shape)
rescaled_final_boxes = tf.identity(rescaled_final_boxes,
'rescaled_final_boxes')
fv = tf.identity(fv, name='feature_vector')
prob = tf.nn.softmax(id_logits, name='re_id_probs')
def _build_graph(self, inputs):
volume, gt_seg, gt_affs = inputs
volume = tf.expand_dims(volume, 3)
volume = tf.expand_dims(volume, 0)
# image = image * 2 - 1
with argscope(LeakyReLU, alpha=0.2),\
argscope ([Conv3D, DeConv3D], use_bias=False,
kernel_shape=3, stride=2, padding='SAME',
W_init=tf.contrib.layers.variance_scaling_initializer(factor=0.333, uniform=True)):
_in = Conv3D('in',
volume,
NB_FILTERS,
kernel_shape=(3, 5, 5),
stride=1,
padding='SAME',
nl=INELU,
use_bias=True)
e0 = residual_enc('e0', volume, NB_FILTERS * 1)
e1 = residual_enc('e1', e0, NB_FILTERS * 2)
e2 = residual_enc('e2', e1, NB_FILTERS * 4, kernel_shape=(1, 3, 3))
e3 = residual_enc('e3', e2, NB_FILTERS * 8, kernel_shape=(1, 3, 3))
e3 = Dropout('dr', e3, rate=0.5)
d3 = residual_dec('d3',
e3 + e3,
NB_FILTERS * 4,
kernel_shape=(1, 3, 3))
d2 = residual_dec('d2',
d3 + e2,
NB_FILTERS * 2,
kernel_shape=(1, 3, 3))
d1 = residual_dec('d1', d2 + e1, NB_FILTERS * 1)
d0 = residual_dec('d0', d1 + e0, NB_FILTERS * 1)
logits = funcs.Conv3D('x_out',
d0,
len(nhood),
kernel_shape=(3, 5, 5),
stride=1,
padding='SAME',
nl=tf.identity,
use_bias=True)
logits = tf.squeeze(logits)
logits = tf.transpose(logits, perm=[3, 0, 1, 2], name='logits')
affs = cvt2sigm(tf.tanh(logits))
affs = tf.identity(affs, name='affs')
######################################################################################################################
wbce_malis_loss = wbce_malis(logits,
affs,
gt_affs,
gt_seg,
nhood,
affs_shape,
name='wbce_malis',
limit_z=False)
wbce_malis_loss = tf.identity(wbce_malis_loss, name='wbce_malis_loss')
dice_loss = tf.identity(
(1. -
dice_coe(affs, gt_affs, axis=[0, 1, 2, 3], loss_type='jaccard')) *
0.1,
name='dice_coe')
tot_loss = tf.identity(wbce_malis_loss + dice_loss, name='tot_loss')
######################################################################################################################
self.cost = tot_loss
summary.add_tensor_summary(tot_loss, types=['scalar'])
summary.add_tensor_summary(dice_loss, types=['scalar'])
summary.add_tensor_summary(wbce_malis_loss, types=['scalar'])
def _build_graph(self, inputs):
G = tf.get_default_graph() # For round
tf.local_variables_initializer()
tf.global_variables_initializer()
pi, pm, pl, ui, um, ul = inputs
pi = cvt2tanh(pi)
pm = cvt2tanh(pm)
pl = cvt2tanh(pl)
ui = cvt2tanh(ui)
um = cvt2tanh(um)
ul = cvt2tanh(ul)
# def tf_membr(label):
# with freeze_variables():
# label = np_2imag(label, maxVal=MAX_LABEL)
# label = np.squeeze(label) # Unimplemented: exceptions.NotImplementedError: Only for images of dimension 1-3 are supported, got a 4D one
# # label, nb_labels = skimage.measure.label(color, return_num=True)
# # label = np.expand_dims(label, axis=-1).astype(np.float32) # Modify here for batch
# # for z in range(membr.shape[0]):
# # membr[z,...] = 1-skimage.segmentation.find_boundaries(np.squeeze(label[z,...]), mode='thick') #, mode='inner'
# membr = 1-skimage.segmentation.find_boundaries(np.squeeze(label), mode='thick') #, mode='inner'
# membr = np.expand_dims(membr, axis=-1).astype(np.float32)
# membr = np.expand_dims(membr, axis=0).astype(np.float32)
# membr = np_2tanh(membr, maxVal=1.0)
# membr = np.reshape(membr, label.shape)
# return membr
# def tf_label(color):
# with freeze_variables():
# color = np_2imag(color, maxVal=MAX_LABEL)
# color = np.squeeze(color) # Unimplemented: exceptions.NotImplementedError: Only for images of dimension 1-3 are supported, got a 4D one
# label, nb_labels = skimage.measure.label(color, return_num=True)
# label = np.expand_dims(label, axis=-1).astype(np.float32)
# label = np.expand_dims(label, axis=0).astype(np.float32)
# label = np_2tanh(label, maxVal=MAX_LABEL)
# label = np.reshape(label, color.shape)
# return label
def tf_rand_score(x1, x2):
return np.mean(1.0 -
adjusted_rand_score(x1.flatten(), x2.flatten()))
def rounded(label, factor=MAX_LABEL, name='quantized'):
with G.gradient_override_map({"Round": "Identity"}):
with freeze_variables():
with tf.name_scope(name=name):
# label = cvt2imag(label, maxVal=factor)
# label = tf.round(label)
# label = cvt2tanh(label, maxVal=factor)
# cvt from -1 ~ 1 to 0 255
# label = cvt2imag(label, maxVal=255.0)
cond0 = tf.equal(label, -1.0 * tf.ones_like(label))
label = tf.where(
cond0,
tf.zeros_like(label),
label,
name='removedBackground') # From -1 to 0
label = label * factor # From 0~1 to 0~MAXLABEL
label = tf.round(label)
label = label / factor # From 0~MAXLABEL to 0~1
cond1 = tf.equal(label, 0.0 * tf.zeros_like(label))
label = tf.where(
cond1,
-1.0 * tf.ones_like(label),
label,
name='addedBackground') # From -1 to 0
return tf.identity(label, name=name)
with argscope([Conv2D, Deconv2D, FullyConnected],
W_init=tf.truncated_normal_initializer(stddev=0.02),
use_bias=False), \
argscope(BatchNorm, gamma_init=tf.random_uniform_initializer()), \
argscope([Conv2D, Deconv2D, BatchNorm], data_format='NHWC'), \
argscope(LeakyReLU, alpha=0.2):
with tf.variable_scope('gen'):
# Real pair image 4 gen
with tf.variable_scope('I2M'):
pim, feat_im = self.generator(pi)
with tf.variable_scope('M2L'):
piml, feat_iml = self.generator(pim)
pml, feat_ml = self.generator(pm)
# piml = tf.py_func(tf_label, [(pim)], tf.float32)
# pml = tf.py_func(tf_label, [(pm)], tf.float32)
# print pim
# print piml
# with tf.variable_scope('L2M'):
# # with freeze_variables():
# pimlm = self.generator(piml) #
# plm = self.generator(pl)
# pmlm = self.generator(pml)
# # pimlm = tf.py_func(tf_membr, [(piml)], tf.float32) #
# # plm = tf.py_func(tf_membr, [(pl) ], tf.float32)
# # pmlm = tf.py_func(tf_membr, [(pml) ], tf.float32)
# # print piml
# # print pimlm
# with tf.variable_scope('M2I'):
# pimlmi = self.generator(pimlm) #
# pimi = self.generator(pim)
# # Real pair label 4 gen
# with tf.variable_scope('L2M'):
# # with freeze_variables():
# plm = self.generator(pl)
# # plm = tf.py_func(tf_membr, [(pl) , tf.float32])
# with tf.variable_scope('M2I'):
# plmi = self.generator(plm)
# pmi = self.generator(pi)
# with tf.variable_scope('I2M'):
# plmim = self.generator(plmi) #
# pim = self.generator(pi)
# pmim = self.generator(pmi)
# with tf.variable_scope('M2L'):
# plmiml = self.generator(plmim) #
# plml = self.generator(plm)
# # plmiml = tf.py_func(tf_label, [(plmim)], tf.float32)
# # plml = tf.py_func(tf_label, [(plm)], tf.float32)
with tf.variable_scope('discrim'):
# with tf.variable_scope('I'):
# i_dis_real = self.discriminator(ui)
# i_dis_fake_from_label = self.discriminator(plmi)
with tf.variable_scope('M'):
m_dis_real = self.discriminator(um)
m_dis_fake_from_image = self.discriminator(pim)
# m_dis_fake_from_label = self.discriminator(plm)
with tf.variable_scope('L'):
l_dis_real = self.discriminator(ul)
l_dis_fake_from_image = self.discriminator(piml)
piml = rounded(piml) #
pml = rounded(pml)
# plmiml = rounded(plmiml) #
# plml = rounded(plml)
# with tf.name_scope('Recon_I_loss'):
# recon_imi = tf.reduce_mean(tf.abs((pi) - (pimi)), name='recon_imi')
# recon_lmi = tf.reduce_mean(tf.abs((pi) - (plmi)), name='recon_lmi')
# recon_imlmi = tf.reduce_mean(tf.abs((pi) - (pimlmi)), name='recon_imlmi') #
with tf.name_scope('Recon_L_loss'):
# recon_lml = tf.reduce_mean(tf.abs((pl) - (plml)), name='recon_lml')
# recon_iml = tf.reduce_mean(tf.abs((pl) - (piml)), name='recon_iml')
# recon_ml = tf.reduce_mean(tf.abs((pl) - (pml)), name='recon_ml')
# recon_lmiml = tf.reduce_mean(tf.abs((pl) - (plmiml)), name='recon_lmiml') #
# recon_iml = tf.reduce_mean(tf.cast(tf.not_equal(pl, piml), tf.float32), name='recon_iml')
# recon_ml = tf.reduce_mean(tf.cast(tf.not_equal(pl, pml), tf.float32), name='recon_ml')
recon_ml = tf.reduce_mean(tf.abs(
cvt2imag(pl, maxVal=MAX_LABEL) -
cvt2imag(pml, maxVal=MAX_LABEL)),
name='recon_ml')
recon_iml = tf.reduce_mean(tf.abs(
cvt2imag(pl, maxVal=MAX_LABEL) -
cvt2imag(piml, maxVal=MAX_LABEL)),
name='recon_iml') #
with tf.name_scope('Recon_M_loss'):
# recon_mim = tf.reduce_mean(tf.abs((pm) - (pmim)), name='recon_mim')
# recon_mlm = tf.reduce_mean(tf.abs((pm) - (pmlm)), name='recon_mlm')
# recon_im = tf.reduce_mean(tf.abs((pm) - (pim)), name='recon_im')
# recon_lm = tf.reduce_mean(tf.abs((pm) - (plm)), name='recon_lm')
# recon_im = tf.reduce_mean(tf.cast(tf.not_equal(pm, pim), tf.float32), name='recon_im')
recon_im = tf.reduce_mean(
tf.abs(cvt2imag(pm, maxVal=1.0) - cvt2imag(pim, maxVal=1.0)),
name='recon_im')
with tf.name_scope('GAN_loss'):
# G_loss_IL, D_loss_IL = self.build_losses(i_dis_real, i_dis_fake_from_label, name='IL')
G_loss_LI, D_loss_LI = self.build_losses(l_dis_real,
l_dis_fake_from_image,
name='LL')
G_loss_MI, D_loss_MI = self.build_losses(m_dis_real,
m_dis_fake_from_image,
name='MI')
# G_loss_ML, D_loss_ML = self.build_losses(m_dis_real, m_dis_fake_from_label, name='ML')
# custom loss for membr
with tf.name_scope('membr_loss'):
def membr_loss(y_true, y_pred, name='membr_loss'):
loss = tf.reduce_mean(
tf.subtract(
binary_cross_entropy(cvt2imag(y_true, maxVal=1.0),
cvt2imag(y_pred, maxVal=1.0)),
dice_coe(cvt2imag(y_true, maxVal=1.0),
cvt2imag(y_pred, maxVal=1.0),
axis=[1, 2, 3],
loss_type='jaccard')))
# loss = tf.reshape(loss, [-1])
return tf.identity(loss, name=name)
membr_im = membr_loss(pm, pim, name='membr_im')
# print membr_im
# membr_lm = membr_loss(pm, plm, name='membr_lm')
# membr_imlm = membr_loss(pm, pimlm, name='membr_imlm')
# membr_lmim = membr_loss(pm, plmim, name='membr_lmim')
# membr_mlm = membr_loss(pm, pmlm, name='membr_mlm')
# membr_mim = membr_loss(pm, pmim, name='membr_mim')
# custom loss for label
with tf.name_scope('label_loss'):
def label_loss(y_true_L, y_pred_L, y_grad_M, name='label_loss'):
g_mag_grad_M = cvt2imag(y_grad_M, maxVal=1.0)
mag_grad_L = magnitute_central_difference(y_pred_L,
name='mag_grad_L')
cond = tf.greater(mag_grad_L, tf.zeros_like(mag_grad_L))
thresholded_mag_grad_L = tf.where(
cond,
tf.ones_like(mag_grad_L),
tf.zeros_like(mag_grad_L),
name='thresholded_mag_grad_L')
gtv_guess = tf.multiply(g_mag_grad_M,
thresholded_mag_grad_L,
name='gtv_guess')
loss_gtv_guess = tf.reduce_mean(gtv_guess,
name='loss_gtv_guess')
# loss_gtv_guess = tf.reshape(loss_gtv_guess, [-1])
thresholded_mag_grad_L = cvt2tanh(thresholded_mag_grad_L,
maxVal=1.0)
gtv_guess = cvt2tanh(gtv_guess, maxVal=1.0)
return tf.identity(loss_gtv_guess,
name=name), thresholded_mag_grad_L
label_iml, g_iml = label_loss(None, piml, pim, name='label_iml')
# label_lml, g_lml = label_loss(None, plml, plm, name='label_lml')
# label_lmiml, g_lmiml = label_loss(None, plmiml, plmim, name='label_lmiml')
label_ml, g_ml = label_loss(None, pml, pm, name='label_loss_ml')
# custom loss for tf_rand_score
with tf.name_scope('rand_loss'):
rand_iml = tf.reduce_mean(
tf.cast(tf.py_func(tf_rand_score, [piml, pl], tf.float64),
tf.float32))
rand_ml = tf.reduce_mean(
tf.cast(tf.py_func(tf_rand_score, [pml, pl], tf.float64),
tf.float32))
with tf.name_scope('discrim_loss'):
def regDLF(y_true,
y_pred,
alpha=1,
beta=1,
gamma=0.01,
delta_v=0.5,
delta_d=1.5,
name='loss_discrim'):
def tf_norm(inputs, axis=1, epsilon=1e-7, name='safe_norm'):
squared_norm = tf.reduce_sum(tf.square(inputs),
axis=axis,
keep_dims=True)
safe_norm = tf.sqrt(squared_norm + epsilon)
return tf.identity(safe_norm, name=name)
###
lins = tf.linspace(0.0, DIMZ * DIMY * DIMX, DIMZ * DIMY * DIMX)
lins = tf.cast(lins, tf.int32)
# lins = lins / tf.reduce_max(lins) * 255
# lins = cvt2tanh(lins)
# lins = tf.reshape(lins, tf.shape(y_true), name='lins_3d')
# print lins
lins_z = tf.div(lins, (DIMY * DIMX))
lins_y = tf.div(tf.mod(lins, (DIMY * DIMX)), DIMY)
lins_x = tf.mod(tf.mod(lins, (DIMY * DIMX)), DIMY)
lins = tf.cast(lins, tf.float32)
lins_z = tf.cast(lins_z, tf.float32)
lins_y = tf.cast(lins_y, tf.float32)
lins_x = tf.cast(lins_x, tf.float32)
lins = lins / tf.reduce_max(lins) * 255
lins_z = lins_z / tf.reduce_max(lins_z) * 255
lins_y = lins_y / tf.reduce_max(lins_y) * 255
lins_x = lins_x / tf.reduce_max(lins_x) * 255
lins = cvt2tanh(lins)
lins_z = cvt2tanh(lins_z)
lins_y = cvt2tanh(lins_y)
lins_x = cvt2tanh(lins_x)
lins = tf.reshape(lins, tf.shape(y_true), name='lins')
lins_z = tf.reshape(lins_z, tf.shape(y_true), name='lins_z')
lins_y = tf.reshape(lins_y, tf.shape(y_true), name='lins_y')
lins_x = tf.reshape(lins_x, tf.shape(y_true), name='lins_x')
y_true = tf.reshape(y_true, [DIMZ * DIMY * DIMX])
y_pred = tf.concat([y_pred, lins, lins_z, lins_y, lins_x],
axis=-1)
nDim = tf.shape(y_pred)[-1]
X = tf.reshape(y_pred, [DIMZ * DIMY * DIMX, nDim])
uniqueLabels, uniqueInd = tf.unique(y_true)
numUnique = tf.size(
uniqueLabels) # Get the number of connected component
Sigma = tf.unsorted_segment_sum(X, uniqueInd, numUnique)
# ones_Sigma = tf.ones((tf.shape(X)[0], 1))
ones_Sigma = tf.ones_like(X)
ones_Sigma = tf.unsorted_segment_sum(ones_Sigma, uniqueInd,
numUnique)
mu = tf.divide(Sigma, ones_Sigma)
Lreg = tf.reduce_mean(tf.norm(mu, axis=1, ord=1))
T = tf.norm(tf.subtract(tf.gather(mu, uniqueInd), X),
axis=1,
ord=1)
T = tf.divide(T, Lreg)
T = tf.subtract(T, delta_v)
T = tf.clip_by_value(T, 0, T)
T = tf.square(T)
ones_Sigma = tf.ones_like(uniqueInd, dtype=tf.float32)
ones_Sigma = tf.unsorted_segment_sum(ones_Sigma, uniqueInd,
numUnique)
clusterSigma = tf.unsorted_segment_sum(T, uniqueInd, numUnique)
clusterSigma = tf.divide(clusterSigma, ones_Sigma)
# Lvar = tf.reduce_mean(clusterSigma, axis=0)
Lvar = tf.reduce_mean(clusterSigma)
mu_interleaved_rep = tf.tile(mu, [numUnique, 1])
mu_band_rep = tf.tile(mu, [1, numUnique])
mu_band_rep = tf.reshape(mu_band_rep,
(numUnique * numUnique, nDim))
mu_diff = tf.subtract(mu_band_rep, mu_interleaved_rep)
# Remove zero vector
# intermediate_tensor = reduce_sum(tf.abs(x), 1)
# zero_vector = tf.zeros(shape=(1,1), dtype=tf.float32)
# bool_mask = tf.not_equal(intermediate_tensor, zero_vector)
# omit_zeros = tf.boolean_mask(x, bool_mask)
intermediate_tensor = tf.reduce_sum(tf.abs(mu_diff), 1)
zero_vector = tf.zeros(shape=(1, 1), dtype=tf.float32)
bool_mask = tf.not_equal(intermediate_tensor, zero_vector)
omit_zeros = tf.boolean_mask(mu_diff, bool_mask)
mu_diff = tf.expand_dims(omit_zeros, axis=1)
print mu_diff
mu_diff = tf.norm(mu_diff, ord=1)
# squared_norm = tf.reduce_sum(tf.square(s), axis=axis,keep_dims=True)
# safe_norm = tf.sqrt(squared_norm + epsilon)
# squared_norm = tf.reduce_sum(tf.square(omit_zeros), axis=-1,keep_dims=True)
# safe_norm = tf.sqrt(squared_norm + 1e-6)
# mu_diff = safe_norm
mu_diff = tf.divide(mu_diff, Lreg)
mu_diff = tf.subtract(2 * delta_d, mu_diff)
mu_diff = tf.clip_by_value(mu_diff, 0, mu_diff)
mu_diff = tf.square(mu_diff)
numUniqueF = tf.cast(numUnique, tf.float32)
Ldist = tf.reduce_mean(mu_diff)
# L = alpha * Lvar + beta * Ldist + gamma * Lreg
# L = tf.reduce_mean(L, keep_dims=True)
L = tf.reduce_sum([alpha * Lvar, beta * Ldist, gamma * Lreg],
keep_dims=False)
print L
print Ldist
print Lvar
print Lreg
return tf.identity(L, name=name)
discrim_im = regDLF(cvt2imag(pm, maxVal=1.0),
feat_im,
name='discrim_im')
discrim_iml = regDLF(cvt2imag(pl, maxVal=MAX_LABEL),
feat_iml,
name='discrim_iml')
discrim_ml = regDLF(cvt2imag(pl, maxVal=MAX_LABEL),
feat_ml,
name='discrim_ml')
print discrim_im
print discrim_iml
print discrim_ml
print rand_iml
print rand_ml
self.g_loss = tf.reduce_sum(
[
#(recon_imi), # + recon_lmi + recon_imlmi), #
10 * (recon_iml), # + recon_lml + recon_lmiml), #
10 * (recon_im), # + recon_lm + recon_mim + recon_mlm),
10 * (recon_ml), # + recon_lm + recon_mim + recon_mlm),
(rand_iml), # + rand_lml + rand_lmiml), #
(rand_ml), # + rand_lm + rand_mim + rand_mlm),
# (G_loss_IL + G_loss_LI + G_loss_MI + G_loss_ML),
(G_loss_LI + G_loss_MI),
(0.1 * discrim_im + 10 * discrim_iml + 10 * discrim_ml),
(
0.001 * membr_im
), # + membr_lm + membr_imlm + membr_lmim + membr_mlm + membr_mim),
# (label_iml + label_lml + label_lmiml + label_ml)
(label_iml + label_ml)
],
name='G_loss_total')
self.d_loss = tf.reduce_sum(
[
# (D_loss_IL + D_loss_LI + D_loss_MI + D_loss_ML),
(D_loss_LI + D_loss_MI),
],
name='D_loss_total')
wd_g = regularize_cost('gen/.*/W',
l2_regularizer(1e-5),
name='G_regularize')
wd_d = regularize_cost('discrim/.*/W',
l2_regularizer(1e-5),
name='D_regularize')
self.g_loss = tf.add(self.g_loss, wd_g, name='g_loss')
self.d_loss = tf.add(self.d_loss, wd_d, name='d_loss')
self.collect_variables()
add_moving_summary(self.d_loss, self.g_loss)
# add_moving_summary(
with tf.name_scope('summaries'):
add_tensor_summary(recon_iml, types=['scalar'], name='recon_iml')
add_tensor_summary(recon_im, types=['scalar'], name='recon_im')
add_tensor_summary(recon_ml, types=['scalar'], name='recon_ml')
add_tensor_summary(label_iml, types=['scalar'], name='label_iml')
add_tensor_summary(label_ml, types=['scalar'], name='label_ml')
add_tensor_summary(rand_iml, types=['scalar'], name='rand_iml')
add_tensor_summary(rand_ml, types=['scalar'], name='rand_ml')
add_tensor_summary(membr_im, types=['scalar'], name='membr_im')
add_tensor_summary(discrim_im, types=['scalar'], name='discrim_im')
add_tensor_summary(discrim_iml,
types=['scalar'],
name='discrim_iml')
add_tensor_summary(discrim_ml, types=['scalar'], name='discrim_ml')
# recon_imi, recon_lmi, recon_imlmi,
# recon_lml, recon_iml, recon_lmiml,
# recon_mim, recon_mlm, recon_im , recon_lm,
# )
viz = tf.concat(
[
tf.concat([ui, pi, pim, piml, g_iml], 2),
# tf.concat([ul, pl, plm, plmi, plmim, plmiml], 2),
tf.concat([um, pl, pm, pml, g_ml], 2),
# tf.concat([pl, pl, g_iml, g_lml, g_lmiml, g_ml], 2),
],
1)
# add_moving_summary(
# recon_imi, recon_lmi,# recon_imlmi,
# recon_lml, recon_iml,# recon_lmiml,
# recon_mim, recon_mlm, recon_im , recon_lm,
# )
# viz = tf.concat([tf.concat([ui, pi, pim, piml], 2),
# tf.concat([ul, pl, plm, plmi], 2),
# tf.concat([um, pm, pmi, pmim], 2),
# tf.concat([um, pm, pml, pmlm], 2),
# ], 1)
viz = cvt2imag(viz)
viz = tf.cast(tf.clip_by_value(viz, 0, 255), tf.uint8, name='viz')
tf.summary.image('colorized', viz, max_outputs=50)
