train_data_gen_args = dict(
featurewise_center=False,
featurewise_std_normalization=False,
rotation_range=0,
width_shift_range=0.,
height_shift_range=0.,
horizontal_flip=True,
fill_mode="nearest",
shear_range=0.,
zoom_range=[1, 1.4],
)
if random_crop_size is None:
train_data_generator = dataset.get_keras_data_generator(
is_train=True, keras_data_gen_param=train_data_gen_args, seed=seed)
else:
train_data_generator = dataset.get_custom_data_generator(
is_train=True, keras_data_gen_param=train_data_gen_args, seed=seed)
# no val augmentation.
val_data_gen_args = dict(featurewise_center=False,
featurewise_std_normalization=False,
rotation_range=0.,
width_shift_range=0.,
height_shift_range=0.,
horizontal_flip=False)
val_data_generator = dataset.get_keras_data_generator(
is_train=False, keras_data_gen_param=val_data_gen_args, seed=seed)
model = get_dilated_unet(input_shape=(None, None, 1),
mode='cascade',
filters=32,
n_class=1)
def train_generator(model_def,
model_saved_path,
h5_data_path,
batch_size,
epochs,
model_weights,
gpus=1,
verbose=1,
csv_log_suffix="0",
fold_k="0",
random_k_fold=False,
input_channels=1,
output_channels=2,
random_crop_size=(256, 256),
mask_nb=0,
seed=0):
model_weights_root = os.path.dirname(model_saved_path)
if not os.path.isdir(model_weights_root):
os.makedirs(model_weights_root)
learning_rate_scheduler = LearningRateScheduler(
schedule=get_learning_rate_scheduler, verbose=0)
opt = Adam(amsgrad=True)
# opt = SGD()
log_path = os.path.join(
CONFIG.log_root,
"log_" + os.path.splitext(os.path.basename(model_saved_path))[0]
) + "_" + csv_log_suffix + ".csv"
if not os.path.isdir(CONFIG.log_root):
os.makedirs(CONFIG.log_root)
if os.path.isfile(log_path):
print("Log file exists.")
# exit()
csv_logger = CSVLogger(log_path, append=False)
# tensorboard = TensorBoard(log_dir='/home/jzhang/helloworld/mtcnn/cb/logs/tensorboard', write_images=True)
# fit_metrics = [dice_coef, metrics.binary_crossentropy, binary_acc_ch0]
# fit_loss = sigmoid_dice_loss_1channel_output
fit_loss = sigmoid_dice_loss
fit_metrics = [
dice_coef_rounded_ch0, dice_coef_rounded_ch1,
metrics.binary_crossentropy, mean_iou_ch0, binary_acc_ch0
]
# fit_metrics = [dice_coef_rounded_ch0, metrics.binary_crossentropy, mean_iou_ch0]
# es = EarlyStopping('val_acc', patience=30, mode="auto", min_delta=0.0)
# reduce_lr = ReduceLROnPlateau(monitor='val_acc', factor=0.1, patience=20, verbose=2, epsilon=1e-4,
# mode='auto')
if model_weights:
model = model_def
print("Loading weights ...")
model.load_weights(model_weights, by_name=True, skip_mismatch=True)
print("Model weights {} have been loaded.".format(model_weights))
else:
model = model_def
print("Model created.")
# # prepare train and val data.
# dataset = DataSet(h5_data_path, val_fold_nb=fold_k, random_k_fold=random_k_fold,
# input_channels=input_channels, output_channels=output_channels,
# random_crop_size=random_crop_size, mask_nb=mask_nb, batch_size=batch_size
# )
train_ids = [
'00000041', '00000042', '00000043', '00000044', '00000045', '00000046',
'00000047', '00000048', '00000049', '00000050', '00000051', '00000052',
'00000053', '00000054', '00000055', '00000056', '00000057', '00000058',
'00000059', '00000060', '00000061', '00000062', '00000063', '00000064',
'00000065', '00000066', '00000067', '00000068', '00000069', '00000070',
'00000071', '00000072', '00000073', '00000074', '00000075', '00000076',
'00000077', '00000078', '00000079', '00000080'
]
val_ids = ['00000041', '00000059', '00000074', '00000075']
dataset = DataSet(h5_data_path,
val_fold_nb=fold_k,
random_k_fold=random_k_fold,
input_channels=input_channels,
output_channels=output_channels,
random_crop_size=random_crop_size,
mask_nb=mask_nb,
batch_size=batch_size,
train_ids=train_ids,
val_ids=val_ids)
# we create two instances with the same arguments
# train_data_gen_args = dict(featurewise_center=False,
# featurewise_std_normalization=False,
# rotation_range=15,
# width_shift_range=0.1,
# height_shift_range=0.1,
# horizontal_flip=True,
# fill_mode="nearest",
# shear_range=0.,
# zoom_range=0.15,
# )
train_data_gen_args = dict(
featurewise_center=False,
featurewise_std_normalization=False,
rotation_range=0,
width_shift_range=0.,
height_shift_range=0.,
horizontal_flip=True,
fill_mode="nearest",
shear_range=0.,
zoom_range=0.,
)
if CONFIG.random_crop_size is None:
train_data_generator = dataset.get_keras_data_generator(
is_train=True, keras_data_gen_param=train_data_gen_args, seed=seed)
else:
train_data_generator = dataset.get_custom_data_generator(
is_train=True, keras_data_gen_param=train_data_gen_args, seed=seed)
# no val augmentation.
val_data_gen_args = dict(featurewise_center=False,
featurewise_std_normalization=False,
rotation_range=0.,
width_shift_range=0.,
height_shift_range=0.,
horizontal_flip=False)
val_data_generator = dataset.get_keras_data_generator(
is_train=False, keras_data_gen_param=val_data_gen_args, seed=seed)
model_save_root, model_save_basename = os.path.split(model_saved_path)
# model_saved_path_best_loss = os.path.join(model_save_root, "best_val_loss_" + model_save_basename)
if gpus > 1:
parallel_model = multi_gpu_model(model, gpus=gpus)
model_checkpoint0 = ModelCheckpointMGPU(model,
model_saved_path,
save_best_only=True,
save_weights_only=True,
monitor="val_loss",
mode='min')
else:
parallel_model = model
model_checkpoint0 = ModelCheckpoint(model_saved_path,
save_best_only=True,
save_weights_only=True,
monitor='val_loss',
mode='min')
parallel_model.compile(loss=fit_loss, optimizer=opt, metrics=fit_metrics)
# model.summary()
train_steps = dataset.get_train_val_steps(is_train=True)
val_steps = dataset.get_train_val_steps(is_train=False)
print("Training ...")
parallel_model.fit_generator(
train_data_generator,
validation_data=val_data_generator,
steps_per_epoch=train_steps,
validation_steps=val_steps,
epochs=epochs,
callbacks=[model_checkpoint0, csv_logger, learning_rate_scheduler],
verbose=verbose,
workers=1,
use_multiprocessing=False,
shuffle=True)
# model_save_root, model_save_basename = os.path.split(model_saved_path)
# final_model_save_path = os.path.join(model_save_root, "final_" + model_save_basename)
# model.save_weights(final_model_save_path)
del model, parallel_model
K.clear_session()
gc.collect()
