def test_location_3d(self):
with custom_object_scope({'Location3D': layers.Location3D}):
testing_utils.layer_test(layers.Location3D,
kwargs={
'in_shape': (11, 12, 10, 4),
'data_format': 'channels_last'
},
input_shape=(3, 11, 12, 10, 4))
testing_utils.layer_test(layers.Location3D,
kwargs={
'in_shape': (4, 11, 12, 10),
'data_format': 'channels_first'
},
input_shape=(3, 4, 11, 12, 10))
def test_location_2d(self):
with custom_object_scope({'Location2D': layers.Location2D}):
testing_utils.layer_test(layers.Location2D,
kwargs={
'in_shape': (5, 6, 4),
'data_format': 'channels_last'
},
input_shape=(3, 5, 6, 4))
testing_utils.layer_test(layers.Location2D,
kwargs={
'in_shape': (4, 5, 6),
'data_format': 'channels_first'
},
input_shape=(3, 4, 5, 6))
def quant_model(float_model,quant_model,batchsize,predict,pred_dir):
'''
Quantize the floating-point model
Save to HDF5 file
'''
# make folder for saving quantized model
head_tail = os.path.split(quant_model)
os.makedirs(head_tail[0], exist_ok = True)
# make dataset and image processing pipeline
_, x_test, _, x_test_noisy = mnist_download()
calib_dataset = input_fn((x_test_noisy,x_test), batchsize, False)
with custom_object_scope({'Sampling': Sampling}):
# load trained floating-point model
float_model = load_model(float_model, compile=False, custom_objects={'Sampling': Sampling} )
# quantizer
quantizer = vitis_quantize.VitisQuantizer(float_model)
quantized_model = quantizer.quantize_model(calib_dataset=calib_dataset)
# saved quantized model
quantized_model.save(quant_model)
print('Saved quantized model to',quant_model)
'''
Predictions
'''
if (predict):
print('\n'+DIVIDER)
print ('Predicting with quantized model..')
print(DIVIDER+'\n')
# remake predictions folder
shutil.rmtree(pred_dir, ignore_errors=True)
os.makedirs(pred_dir)
predict_dataset = input_fn((x_test_noisy), batchsize, False)
predictions = quantized_model.predict(predict_dataset, verbose=0)
# scale pixel values back up to range 0:255 then save as PNG
for i in range(20):
cv2.imwrite(pred_dir+'/pred_'+str(i)+'.png', predictions[i] * 255.0)
print('Predictions saved as images in ./' + pred_dir)
return
def test_anchors_2d(self):
with custom_object_scope({'Anchors': layers.Anchors}):
testing_utils.layer_test(
layers.Anchors,
kwargs={'size': 1, 'stride': 1,
'data_format': 'channels_last'},
input_shape=(3, 5, 6, 4))
testing_utils.layer_test(
layers.Anchors,
kwargs={'size': 1, 'stride': 1,
'data_format': 'channels_last'},
input_shape=(3, None, None, None))
testing_utils.layer_test(
layers.Anchors,
kwargs={'size': 1, 'stride': 1,
'data_format': 'channels_first'},
input_shape=(3, 5, 6, 4))
def test_unmerge(self):
track_length = 5
max_cells = 10
embedding_dim = 64
custom_objects = {'Unmerge': layers.Unmerge}
with self.cached_session():
with custom_object_scope(custom_objects):
testing_utils.layer_test(layers.Unmerge,
kwargs={
'track_length': track_length,
'max_cells': max_cells,
'embedding_dim': embedding_dim
},
input_shape=(None,
track_length * max_cells,
embedding_dim))
def test_dilated_max_pool_3d(self, strides, dilation_rate, padding):
custom_objects = {'DilatedMaxPool3D': layers.DilatedMaxPool3D}
pool_size = (3, 3, 3)
with self.cached_session():
with custom_object_scope(custom_objects):
testing_utils.layer_test(
layers.DilatedMaxPool3D,
kwargs={'strides': strides,
'padding': padding,
'dilation_rate': dilation_rate,
'pool_size': pool_size},
input_shape=(3, 11, 12, 10, 4))
testing_utils.layer_test(
layers.DilatedMaxPool3D,
kwargs={'strides': strides,
'padding': padding,
'dilation_rate': dilation_rate,
'data_format': 'channels_first',
'pool_size': pool_size},
input_shape=(3, 4, 11, 12, 10))
def test_dilated_max_pool_2d(self, strides, dilation_rate, padding):
pool_size = (3, 3)
custom_objects = {'DilatedMaxPool2D': layers.DilatedMaxPool2D}
with self.cached_session():
with custom_object_scope(custom_objects):
testing_utils.layer_test(
layers.DilatedMaxPool2D,
kwargs={'strides': strides,
'pool_size': pool_size,
'padding': padding,
'dilation_rate': dilation_rate,
'data_format': 'channels_last'},
input_shape=(3, 5, 6, 4))
testing_utils.layer_test(
layers.DilatedMaxPool2D,
kwargs={'strides': strides,
'pool_size': pool_size,
'padding': padding,
'dilation_rate': dilation_rate,
'data_format': 'channels_first'},
input_shape=(3, 4, 5, 6))
def test_simple(self):
with custom_object_scope(
{'LocalizedAttentionLayer2D': LocalizedAttentionLayer2D}):
in_shape = [4, 4]
bs = 1
dim = 4
v_dim = dim * 2
s = 2
layer = LocalizedAttentionLayer2D(patch_size=(3, 3),
strides=(s, s),
num_heads=2,
dilations=(1, 1))
q = to_tensor(
normal(size=(bs, in_shape[0] // s, in_shape[1] // s,
dim)).astype(np.float32))
k = to_tensor(
normal(size=(bs, in_shape[0], in_shape[1],
dim)).astype(np.float32))
v = to_tensor(
normal(size=(bs, in_shape[0], in_shape[1],
v_dim)).astype(np.float32))
@tf.function
def test_func(_q, _k, _v):
return layer(_q, _k, _v)
r = test_func(q, _k=k, _v=v)
ex_res_shape = np.zeros(
(bs, in_shape[0] // s, in_shape[1] // s, v_dim))
self.assertShapeEqual(ex_res_shape, r)
_test_grads(self, test_func, [q, k, v])
def test_simple(self):
with custom_object_scope({'TimeDelayLayer1D': TimeDelayLayer1D}):
layer_test(TimeDelayLayer1D,
kwargs={'output_dim': 4},
input_shape=(5, 32, 3))
def train(float_model, predict, pred_dir, tblogs_dir, batchsize, learnrate,
epochs):
'''
Variational encoder model
'''
image_dim = 28
image_chan = 1
input_layer = Input(shape=(image_dim, image_dim, image_chan))
encoder_mu, encoder_log_variance, encoder_z = encoder.call(input_layer)
dec_out = decoder.call(encoder_z)
model = Model(inputs=input_layer, outputs=dec_out)
'''
Prepare MNIST dataset
'''
x_train, x_test, x_train_noisy, x_test_noisy = mnist_download()
train_dataset = input_fn((x_train_noisy, x_train), batchsize, True)
test_dataset = input_fn((x_test_noisy, x_test), batchsize, False)
predict_dataset = input_fn((x_test_noisy), batchsize, False)
'''
Call backs
'''
tb_call = TensorBoard(log_dir=tblogs_dir)
chkpt_call = ModelCheckpoint(filepath=float_model,
monitor='val_mse',
mode='min',
verbose=1,
save_weights_only=False,
save_best_only=True)
callbacks_list = [tb_call, chkpt_call]
'''
Compile
'''
model.compile(optimizer=Adam(lr=learnrate),
loss=lambda y_true, y_predict: loss_func(
y_true, y_predict, encoder_mu, encoder_log_variance),
metrics=['mse'])
'''
Training
'''
print(_DIVIDER)
print('Training...')
print(_DIVIDER)
# make folder for saving trained model checkpoint
os.makedirs(os.path.dirname(float_model), exist_ok=True)
# remake Tensorboard logs folder
shutil.rmtree(tblogs_dir, ignore_errors=True)
os.makedirs(tblogs_dir)
train_history = model.fit(train_dataset,
epochs=epochs,
steps_per_epoch=len(x_train) // batchsize,
validation_data=test_dataset,
callbacks=callbacks_list,
verbose=1)
'''
Predictions
'''
if (predict):
print(_DIVIDER)
print('Making predictions...')
print(_DIVIDER)
# remake predictions folder
shutil.rmtree(pred_dir, ignore_errors=True)
os.makedirs(pred_dir)
with custom_object_scope({'Sampling': Sampling}):
model = load_model(float_model,
compile=False,
custom_objects={'Sampling': Sampling})
model.compile(loss=lambda y_true, y_predict: loss_func(
y_true, y_predict, encoder_mu, encoder_log_variance))
predictions = model.predict(predict_dataset, verbose=1)
# scale pixel values back up to range 0:255 then save as PNG
for i in range(20):
cv2.imwrite(pred_dir + '/pred_' + str(i) + '.png',
predictions[i] * 255.0)
cv2.imwrite(pred_dir + '/input_' + str(i) + '.png',
x_test_noisy[i] * 255.0)
print('Inputs and Predictions saved as images in ./' + pred_dir)
print(
"\nTensorBoard can be opened with the command: tensorboard --logdir=./tb_logs --host localhost --port 6006"
)
return